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Conserved domains on  [gi|74181724|dbj|BAE32574|]
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unnamed protein product [Mus musculus]

Protein Classification

DDX55/SPB4 family DEAD/DEAH box RNA helicase( domain architecture ID 13028873)

DDX55/SPB4 family DEAD/DEAH box containing ATP-dependent RNA helicase catalyzes the unwinding of RNA, similar to ATP-dependent rRNA helicase SPB4 that is involved in the biogenesis of 60S ribosomal subunits

CATH:  3.40.50.300
EC:  3.6.4.13
Gene Ontology:  GO:0016887|GO:0003723|GO:0003724|GO:0005524
PubMed:  20206133|21779027|20225155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 38-242 5.23e-123

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


:

Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 361.89  E-value: 5.23e-123
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQVGAIVITPTRELAIQID 117
Cdd:cd17960   1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 118 EVLSHFTK-HFPQFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEgldlASCVKSLDVLVLDEADRLLD 196
Cdd:cd17960  81 EVLQSFLEhHLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 74181724 197 MGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17960 157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 260-390 1.15e-47

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


:

Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 163.06  E-value: 1.15e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 260 LENHYMICKADEKFNQL-VHFLRSRQQEKHLVFFSTCACVEYYGKALEALlkKVKILCIHGKMKYK-RNKIFMEFRKLQS 337
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|...
gi 74181724 338 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:cd18787  79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 423-480 1.27e-21

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


:

Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 88.22  E-value: 1.27e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 74181724   423 PKLRAMALADRAVFEKGMKAFVSFVQAYAKHECSLIFRLKDLDFAGLARGFALLRMPR 480
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
 
Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 38-242 5.23e-123

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 361.89  E-value: 5.23e-123
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQVGAIVITPTRELAIQID 117
Cdd:cd17960   1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 118 EVLSHFTK-HFPQFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEgldlASCVKSLDVLVLDEADRLLD 196
Cdd:cd17960  81 EVLQSFLEhHLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 74181724 197 MGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17960 157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
34-412 2.90e-118

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 357.92  E-value: 2.90e-118
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRReeklKKNQVGAIVITPTRELA 113
Cdd:COG0513   9 LSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPS----RPRAPQALILAPTRELA 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 114 IQIDEVLSHFTKHFPQFSQILwIGGRNPGEDVERFKqHGGNIIVATPGRLEDMFRRKAegLDLascvKSLDVLVLDEADR 193
Cdd:COG0513  85 LQVAEELRKLAKYLGLRVATV-YGGVSIGRQIRALK-RGVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEADR 156

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 194 LLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTPSRLENHYMICKADEKF 273
Cdd:COG0513 157 MLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDKL 229

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 274 NQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDI 352
Cdd:COG0513 230 ELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGIDI 307

                       330       340       350       360       370       380
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74181724 353 PEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFL--AINQKCPLQEM 412
Cdd:COG0513 308 DDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEEL 369
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 33-410 2.90e-69

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 231.61  E-value: 2.90e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   33 PLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILlrreeKLKKNQVGAIVITPTREL 112
Cdd:PRK11776  10 PLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKL-----DVKRFRVQALVLCPTREL 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  113 AIQI-DEV--LSHFTKHFpqfsQILWIGGRNP-GEDVERFkQHGGNIIVATPGRLEDMFRRkaEGLDLAScvksLDVLVL 188
Cdd:PRK11776  85 ADQVaKEIrrLARFIPNI----KVLTLCGGVPmGPQIDSL-EHGAHIIVGTPGRILDHLRK--GTLDLDA----LNTLVL 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  189 DEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKekgvaasSTQKTPSrLENHYMICK 268
Cdd:PRK11776 154 DEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVE-------STHDLPA-IEQRFYEVS 225

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  269 ADEKFNQLVHFLRSRQQEKHLVFFSTCA-CVEYYgKALEAllKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVM 346
Cdd:PRK11776 226 PDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALNA--QGFSALALHGDLeQRDRDQVLVRFANRSCSVLVATDVA 302

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 74181724  347 ARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFLAINQKCPLQ 410
Cdd:PRK11776 303 ARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLN 366
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 51-230 3.01e-49

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 168.57  E-value: 3.01e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724    51 TPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKknqvgAIVITPTRELAIQIDEVLSHFTKHFPQF 130
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQ-----ALVLAPTRELAEQIYEELKKLGKGLGLK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   131 SqILWIGGRNPGEDVERFKqhGGNIIVATPGRLEDMFRRKAEgldlascVKSLDVLVLDEADRLLDMGFEASINTILEFL 210
Cdd:pfam00270  76 V-ASLLGGDSRKEQLEKLK--GPDILVGTPGRLLDLLQERKL-------LKNLKLLVLDEAHRLLDMGFGPDLEEILRRL 145

                         170       180
                  ....*....|....*....|
gi 74181724   211 PKQRRTGLFSATQTQEVENL 230
Cdd:pfam00270 146 PKKRQILLLSATLPRNLEDL 165
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 260-390 1.15e-47

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 163.06  E-value: 1.15e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 260 LENHYMICKADEKFNQL-VHFLRSRQQEKHLVFFSTCACVEYYGKALEALlkKVKILCIHGKMKYK-RNKIFMEFRKLQS 337
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|...
gi 74181724 338 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:cd18787  79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEXDc smart00487
DEAD-like helicases superfamily;
42-246 1.43e-43

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 154.57  E-value: 1.43e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724     42 LRELGFPHMTPVQSATIPLFMKN-KDVAAEAVTGSGKTLAFVIPILEILLRREEKlkknqvGAIVITPTRELAIQIDEVL 120
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG------RVLVLVPTRELAEQWAEEL 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724    121 SHFTKHFPqFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEGLdlascvKSLDVLVLDEADRLLDMGFE 200
Cdd:smart00487  75 KKLGPSLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSL------SNVDLVILDEAHRLLDGGFG 147

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 74181724    201 ASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEK 246
Cdd:smart00487 148 DQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 271-381 1.65e-27

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 106.91  E-value: 1.65e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   271 EKFNQLVHFLRSRQQEKHLVFFSTCACVEyygkaLEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMA 347
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLE-----AELLLEKegIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAE 75

                          90       100       110
                  ....*....|....*....|....*....|....
gi 74181724   348 RGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 381
Cdd:pfam00271  76 RGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
305-381 1.12e-22

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 92.27  E-value: 1.12e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724    305 LEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 381
Cdd:smart00490   3 LAELLKElgIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 423-480 1.27e-21

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 88.22  E-value: 1.27e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 74181724   423 PKLRAMALADRAVFEKGMKAFVSFVQAYAKHECSLIFRLKDLDFAGLARGFALLRMPR 480
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
339-397 5.25e-07

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 52.81  E-value: 5.25e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 74181724 339 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIgHGGSA--LVFLLPMEEAY 397
Cdd:COG1111 414 VLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRK-REGRVvvLIAKGTRDEAY 473
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 298-356 9.11e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 48.89  E-value: 9.11e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   298 VEYYGKALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 356
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
PRK13766 PRK13766
Hef nuclease; Provisional
 331-388 2.54e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 2.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 74181724  331 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDP-PSnASAFVHRCGRTARiGHGGSALV 388
Cdd:PRK13766 418 KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPS-EIRSIQRKGRTGR-QEEGRVVV 474
 
Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 38-242 5.23e-123

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 361.89  E-value: 5.23e-123
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQVGAIVITPTRELAIQID 117
Cdd:cd17960   1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 118 EVLSHFTK-HFPQFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEgldlASCVKSLDVLVLDEADRLLD 196
Cdd:cd17960  81 EVLQSFLEhHLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 74181724 197 MGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17960 157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
34-412 2.90e-118

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 357.92  E-value: 2.90e-118
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRReeklKKNQVGAIVITPTRELA 113
Cdd:COG0513   9 LSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPS----RPRAPQALILAPTRELA 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 114 IQIDEVLSHFTKHFPQFSQILwIGGRNPGEDVERFKqHGGNIIVATPGRLEDMFRRKAegLDLascvKSLDVLVLDEADR 193
Cdd:COG0513  85 LQVAEELRKLAKYLGLRVATV-YGGVSIGRQIRALK-RGVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEADR 156

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 194 LLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTPSRLENHYMICKADEKF 273
Cdd:COG0513 157 MLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDKL 229

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 274 NQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDI 352
Cdd:COG0513 230 ELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGIDI 307

                       330       340       350       360       370       380
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74181724 353 PEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFL--AINQKCPLQEM 412
Cdd:COG0513 308 DDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEEL 369
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 38-242 2.09e-75

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 238.88  E-value: 2.09e-75
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKlKKNQVGAIVITPTRELAIQID 117
Cdd:cd00268   1 LLKALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILEKLLPEPKK-KGRGPQALVLAPTRELAMQIA 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 118 EVLSHFTKHfPQFSQILWIGGRNPGEDVERFKqHGGNIIVATPGRLEDMFRRKAegLDLascvKSLDVLVLDEADRLLDM 197
Cdd:cd00268  80 EVARKLGKG-TGLKVAAIYGGAPIKKQIEALK-KGPDIVVGTPGRLLDLIERGK--LDL----SNVKYLVLDEADRMLDM 151

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 74181724 198 GFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd00268 152 GFEEDVEKILSALPKDRQTLLFSATLPEEVKELAKKFLKNPVRIE 196
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 33-410 2.90e-69

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 231.61  E-value: 2.90e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   33 PLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILlrreeKLKKNQVGAIVITPTREL 112
Cdd:PRK11776  10 PLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKL-----DVKRFRVQALVLCPTREL 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  113 AIQI-DEV--LSHFTKHFpqfsQILWIGGRNP-GEDVERFkQHGGNIIVATPGRLEDMFRRkaEGLDLAScvksLDVLVL 188
Cdd:PRK11776  85 ADQVaKEIrrLARFIPNI----KVLTLCGGVPmGPQIDSL-EHGAHIIVGTPGRILDHLRK--GTLDLDA----LNTLVL 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  189 DEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKekgvaasSTQKTPSrLENHYMICK 268
Cdd:PRK11776 154 DEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVE-------STHDLPA-IEQRFYEVS 225

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  269 ADEKFNQLVHFLRSRQQEKHLVFFSTCA-CVEYYgKALEAllKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVM 346
Cdd:PRK11776 226 PDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALNA--QGFSALALHGDLeQRDRDQVLVRFANRSCSVLVATDVA 302

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 74181724  347 ARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFLAINQKCPLQ 410
Cdd:PRK11776 303 ARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLN 366
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 41-243 4.57e-64

DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin gene, NUP98, by inversion 11 (p15q22) chromosome translocation is found in the patients with de novo or therapy-related myeloid malignancies. Diseases associated with DDX10 (also known as DDX10-NUP98 Fusion Protein Type 2) include myelodysplastic syndrome and leukemia, acute myeloid. DDX10 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350699 [Multi-domain]  Cd Length: 198  Bit Score: 209.45  E-value: 4.57e-64
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  41 ALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEiLLRREEKLKKNQVGAIVITPTRELAIQIDEVL 120
Cdd:cd17941   4 GLKEAGFIKMTEIQRDSIPHALQGRDILGAAKTGSGKTLAFLVPLLE-KLYRERWTPEDGLGALIISPTRELAMQIFEVL 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 121 SHFTKHFpQFSQILWIGGRNPGEDVERFkqHGGNIIVATPGR-LEDMfrRKAEGLDLAScvksLDVLVLDEADRLLDMGF 199
Cdd:cd17941  83 RKVGKYH-SFSAGLIIGGKDVKEEKERI--NRMNILVCTPGRlLQHM--DETPGFDTSN----LQMLVLDEADRILDMGF 153

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 74181724 200 EASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 243
Cdd:cd17941 154 KETLDAIVENLPKSRQTLLFSATQTKSVKDLARLSLKNPEYISV 197
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 34-236 1.19e-63

DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for mitochondrial group I and II intron splicing, translational activation, and RNA end processing. Mss116 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350722 [Multi-domain]  Cd Length: 211  Bit Score: 208.59  E-value: 1.19e-63
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATI-PLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQVGAIVITPTREL 112
Cdd:cd17964   1 LDPSLLKALTRMGFETMTPVQQKTLkPILSTGDDVLARAKTGTGKTLAFLLPAIQSLLNTKPAGRRSGVSALIISPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 113 AIQIDEVLSHFTKHFPQFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEGLDLascvKSLDVLVLDEAD 192
Cdd:cd17964  81 ALQIAAEAKKLLQGLRKLRVQSAVGGTSRRAELNRLRRGRPDILVATPGRLIDHLENPGVAKAF----TDLDYLVLDEAD 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 74181724 193 RLLDMGFEASINTILEFLPK----QRRTGLFSATQTQEVENLVRAGLR 236
Cdd:cd17964 157 RLLDMGFRPDLEQILRHLPEknadPRQTLLFSATVPDEVQQIARLTLK 204
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 27-386 4.66e-63

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 214.42  E-value: 4.66e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   27 WESLQvpLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILL---RReeklKKNQVGA 103
Cdd:PRK11192   3 FSELE--LDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLdfpRR----KSGPPRI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  104 IVITPTRELAIQIDEVLSHFTKHfPQFSQILWIGGRNPGEDVERFKQHGgNIIVATPGRLedMFRRKAEGLDLascvKSL 183
Cdd:PRK11192  77 LILTPTRELAMQVADQARELAKH-THLDIATITGGVAYMNHAEVFSENQ-DIVVATPGRL--LQYIKEENFDC----RAV 148

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  184 DVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQE-VENLVRAGLRNPVRISVKekgvaasstqktPSRLEN 262
Cdd:PRK11192 149 ETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDaVQDFAERLLNDPVEVEAE------------PSRRER 216

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  263 ---HYMICKADE---KFNQLVHFLRSRQQEKHLVFFSTCACVEYygkaLEALLKKVKILC--IHGKM-KYKRNKIFMEFR 333
Cdd:PRK11192 217 kkiHQWYYRADDlehKTALLCHLLKQPEVTRSIVFVRTRERVHE----LAGWLRKAGINCcyLEGEMvQAKRNEAIKRLT 292

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|...
gi 74181724  334 KLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSA 386
Cdd:PRK11192 293 DGRVNVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTA 345
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 34-413 6.90e-60

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 209.81  E-value: 6.90e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKN--QVGAIVITPTRE 111
Cdd:PRK04537  16 LHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKpeDPRALILAPTRE 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  112 LAIQIDEVLSHFTKHFP-QFSqiLWIGGRNPGEDVERFKQhGGNIIVATPGRLEDmFRRKAEGLDLASCvkslDVLVLDE 190
Cdd:PRK04537  96 LAIQIHKDAVKFGADLGlRFA--LVYGGVDYDKQRELLQQ-GVDVIIATPGRLID-YVKQHKVVSLHAC----EICVLDE 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  191 ADRLLDMGFEASINTILEFLPKQ--RRTGLFSATQTQEVENLVRAGLRNPvrisvkEKGVAASSTqKTPSRLENHYMICK 268
Cdd:PRK04537 168 ADRMFDLGFIKDIRFLLRRMPERgtRQTLLFSATLSHRVLELAYEHMNEP------EKLVVETET-ITAARVRQRIYFPA 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  269 ADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEALLKKVKILCIHGKMKyKRNKIFMEFRKLQSGILVCTDVMAR 348
Cdd:PRK04537 241 DEEKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQK-KRESLLNRFQKGQLEILVATDVAAR 319

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74181724  349 GIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL-------LPMEEAYinflaINQKCPLQEMS 413
Cdd:PRK04537 320 GLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFAceryamsLPDIEAY-----IEQKIPVEPVT 386
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 38-242 1.83e-59

DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ribosomal subunits protein 1 homolog, and probable ATP-dependent RNA helicase DDX27) is involved in the processing of 5.8S and 28S ribosomal RNAs. More specifically, the encoded protein localizes to the nucleolus, where it interacts with the PeBoW complex to ensure proper 3' end formation of 47S rRNA. DDX27 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350705 [Multi-domain]  Cd Length: 196  Bit Score: 197.09  E-value: 1.83e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQVgaIVITPTRELAIQID 117
Cdd:cd17947   1 LLRALSSLGFTKPTPIQAAAIPLALLGKDICASAVTGSGKTAAFLLPILERLLYRPKKKAATRV--LVLVPTRELAMQCF 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 118 EVLshftKHFPQFSQI---LWIGGRNPGEDvERFKQHGGNIIVATPGRLEDMFRrKAEGLDLascvKSLDVLVLDEADRL 194
Cdd:cd17947  79 SVL----QQLAQFTDItfaLAVGGLSLKAQ-EAALRARPDIVIATPGRLIDHLR-NSPSFDL----DSIEILVLDEADRM 148

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 74181724 195 LDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17947 149 LEEGFADELKEILRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVRVF 196
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 41-238 6.56e-59

DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein and is activated by Myc protein. DDX18 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350700 [Multi-domain]  Cd Length: 198  Bit Score: 195.66  E-value: 6.56e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  41 ALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKlKKNQVGAIVITPTRELAIQIDEVL 120
Cdd:cd17942   4 AIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLYKLKFK-PRNGTGVIIISPTRELALQIYGVA 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 121 SHFTKHFPQFSQILwIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAEGLdlascVKSLDVLVLDEADRLLDMGFE 200
Cdd:cd17942  83 KELLKYHSQTFGIV-IGGANRKAEAEKLGK-GVNILVATPGRLLDHLQNTKGFL-----YKNLQCLIIDEADRILEIGFE 155

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 74181724 201 ASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP 238
Cdd:cd17942 156 EEMRQIIKLLPKRRQTMLFSATQTRKVEDLARISLKKK 193
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 34-390 3.13e-56

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 197.44  E-value: 3.13e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRR--EEKLKKNQVGAIVITPTRE 111
Cdd:PRK01297  94 LAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTppPKERYMGEPRALIIAPTRE 173

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  112 LAIQIDEVLSHFTKhFPQFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEGLDLascvksLDVLVLDEA 191
Cdd:PRK01297 174 LVVQIAKDAAALTK-YTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDM------VEVMVLDEA 246

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  192 DRLLDMGFEASINTILEFLPK--QRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAASStqktpsrLENH-YMICK 268
Cdd:PRK01297 247 DRMLDMGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDT-------VEQHvYAVAG 319

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  269 ADeKFNQLVHFLRSRQQEKHLVFFSTCACVeyygKALEALLKK--VKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDV 345
Cdd:PRK01297 320 SD-KYKLLYNLVTQNPWERVMVFANRKDEV----RRIEERLVKdgINAAQLSGDVpQHKRIKTLEGFREGKIRVLVATDV 394

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*
gi 74181724  346 MARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:PRK01297 395 AGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFA 439
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 21-399 3.17e-56

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 195.96  E-value: 3.17e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   21 HVTEGAWESLqvPLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRRE--EKLKK 98
Cdd:PRK04837   4 HLTEQKFSDF--ALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPapEDRKV 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   99 NQVGAIVITPTRELAIQID---EVLSHFTKhfpqFSQILWIGGRnpGEDVERFK-QHGGNIIVATPGRLEDMFRRKAEGL 174
Cdd:PRK04837  82 NQPRALIMAPTRELAVQIHadaEPLAQATG----LKLGLAYGGD--GYDKQLKVlESGVDILIGTTGRLIDYAKQNHINL 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  175 DlascvkSLDVLVLDEADRLLDMGFEASINTILEFLP--KQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaass 252
Cdd:PRK04837 156 G------AIQVVVLDEADRMFDLGFIKDIRWLFRRMPpaNQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPE------ 223

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  253 tQKTPSRLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFST-CACVEYYGKaLEALLKKVKILCIHGKMKyKRNKIFME 331
Cdd:PRK04837 224 -QKTGHRIKEELFYPSNEEKMRLLQTLIEEEWPDRAIIFANTkHRCEEIWGH-LAADGHRVGLLTGDVAQK-KRLRILEE 300

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 74181724  332 FRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL-------LPMEEAYIN 399
Cdd:PRK04837 301 FTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLAceeyalnLPAIETYIG 375
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 34-387 1.21e-54

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 192.72  E-value: 1.21e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLK-KNQVGAIVITPTREL 112
Cdd:PRK10590   8 LSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKgRRPVRALILTPTREL 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  113 AIQIDEVLSHFTKHFPQFSQILWIG-GRNPgedvERFKQHGG-NIIVATPGRLEDMFRRKAEGLDlascvkSLDVLVLDE 190
Cdd:PRK10590  88 AAQIGENVRDYSKYLNIRSLVVFGGvSINP----QMMKLRGGvDVLVATPGRLLDLEHQNAVKLD------QVEILVLDE 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  191 ADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAAsstqktpSRLENHYMICKAD 270
Cdd:PRK10590 158 ADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTAS-------EQVTQHVHFVDKK 230

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  271 EKFNQLVHFLRSRQQEKHLVFFSTcacvEYYGKALEALLKK--VKILCIHG-KMKYKRNKIFMEFRKLQSGILVCTDVMA 347
Cdd:PRK10590 231 RKRELLSQMIGKGNWQQVLVFTRT----KHGANHLAEQLNKdgIRSAAIHGnKSQGARTRALADFKSGDIRVLVATDIAA 306

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|
gi 74181724  348 RGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSAL 387
Cdd:PRK10590 307 RGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEAL 346
PTZ00110 PTZ00110
helicase; Provisional
 38-392 1.76e-53

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 191.53  E-value: 1.76e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILeILLRREEKLKKNQvGAI--VITPTRELAIQ 115
Cdd:PTZ00110 141 ILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAI-VHINAQPLLRYGD-GPIvlVLAPTRELAEQ 218

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  116 IDEVLSHFTKHFPQFSQILWIGGRNPGEDVERfkQHGGNIIVATPGRLEDMFRRKAEGLdlascvKSLDVLVLDEADRLL 195
Cdd:PTZ00110 219 IREQCNKFGASSKIRNTVAYGGVPKRGQIYAL--RRGVEILIACPGRLIDFLESNVTNL------RRVTYLVLDEADRML 290

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  196 DMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRN-PVRISVkekgvaASSTQKTPSRLENHYMICKADEKFN 274
Cdd:PTZ00110 291 DMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEePVHVNV------GSLDLTACHNIKQEVFVVEEHEKRG 364

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  275 QLVHFLRS--RQQEKHLVFFSTCACVEYYGKALEalLKKVKILCIHG-KMKYKRNKIFMEFRKLQSGILVCTDVMARGID 351
Cdd:PTZ00110 365 KLKMLLQRimRDGDKILIFVETKKGADFLTKELR--LDGWPALCIHGdKKQEERTWVLNEFKTGKSPIMIATDVASRGLD 442

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|.
gi 74181724  352 IPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLP 392
Cdd:PTZ00110 443 VKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTP 483
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 34-242 2.69e-53

DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. DX47 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350712 [Multi-domain]  Cd Length: 203  Bit Score: 180.98  E-value: 2.69e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKknqvgAIVITPTRELA 113
Cdd:cd17954   7 VCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLENPQRFF-----ALVLAPTRELA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 114 IQIDEVLSHFTKHFPQFSQILwIGGRNPGEDVERF--KQHggnIIVATPGRLEDMFRRkAEGLDLascvKSLDVLVLDEA 191
Cdd:cd17954  82 QQISEQFEALGSSIGLKSAVL-VGGMDMMAQAIALakKPH---VIVATPGRLVDHLEN-TKGFSL----KSLKFLVMDEA 152

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 74181724 192 DRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17954 153 DRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKIE 203
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 38-390 1.87e-51

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 187.75  E-value: 1.87e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILlrrEEKLKKNQVgaIVITPTRELAIQID 117
Cdd:PRK11634  17 ILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNL---DPELKAPQI--LVLAPTRELAVQVA 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  118 EVLSHFTKHFPQFSQILWIGGRNpgEDVE-RFKQHGGNIIVATPGRLEDMFRRKAegLDLAScvksLDVLVLDEADRLLD 196
Cdd:PRK11634  92 EAMTDFSKHMRGVNVVALYGGQR--YDVQlRALRQGPQIVVGTPGRLLDHLKRGT--LDLSK----LSGLVLDEADEMLR 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  197 MGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP--VRISvkekgvaaSSTQKTPSrLENHYMICKADEKFN 274
Cdd:PRK11634 164 MGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPqeVRIQ--------SSVTTRPD-ISQSYWTVWGMRKNE 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  275 QLVHFLRSRQQEKHLVFFSTCACVEYYGKALEalLKKVKILCIHGKMkykrNKIFME--FRKLQSG---ILVCTDVMARG 349
Cdd:PRK11634 235 ALVRFLEAEDFDAAIIFVRTKNATLEVAEALE--RNGYNSAALNGDM----NQALREqtLERLKDGrldILIATDVAARG 308

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|.
gi 74181724  350 IDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:PRK11634 309 LDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFV 349
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 51-230 3.01e-49

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 168.57  E-value: 3.01e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724    51 TPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKknqvgAIVITPTRELAIQIDEVLSHFTKHFPQF 130
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQ-----ALVLAPTRELAEQIYEELKKLGKGLGLK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   131 SqILWIGGRNPGEDVERFKqhGGNIIVATPGRLEDMFRRKAEgldlascVKSLDVLVLDEADRLLDMGFEASINTILEFL 210
Cdd:pfam00270  76 V-ASLLGGDSRKEQLEKLK--GPDILVGTPGRLLDLLQERKL-------LKNLKLLVLDEAHRLLDMGFGPDLEEILRRL 145

                         170       180
                  ....*....|....*....|
gi 74181724   211 PKQRRTGLFSATQTQEVENL 230
Cdd:pfam00270 146 PKKRQILLLSATLPRNLEDL 165
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 38-242 2.38e-48

DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and PRP28 homolog) is involved in pre-mRNA splicing and its phosphorylated form (by SRPK2) is required for spliceosomal B complex formation. Diseases associated with DDX23 include distal hereditary motor neuropathy, type II. DDX23 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350703 [Multi-domain]  Cd Length: 220  Bit Score: 168.27  E-value: 2.38e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLR---REEKLKKNQVGAIVITPTRELAI 114
Cdd:cd17945   1 LLRVIRKLGYKEPTPIQRQAIPIGLQNRDIIGIAETGSGKTAAFLIPLLVYISRlppLDEETKDDGPYALILAPTRELAQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 115 QIDEVLSHFTKHFPqFSQILWIGGRNPgEDVERFKQHGGNIIVATPGRLEDMFRRKAegLDLASCvkslDVLVLDEADRL 194
Cdd:cd17945  81 QIEEETQKFAKPLG-IRVVSIVGGHSI-EEQAFSLRNGCEILIATPGRLLDCLERRL--LVLNQC----TYVVLDEADRM 152

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 74181724 195 LDMGFEASINTILEFLP--------------------KQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17945 153 IDMGFEPQVTKILDAMPvsnkkpdteeaeklaasgkhRYRQTMMFTATMPPAVEKIAKGYLRRPVVVT 220
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 260-390 1.15e-47

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 163.06  E-value: 1.15e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 260 LENHYMICKADEKFNQL-VHFLRSRQQEKHLVFFSTCACVEYYGKALEALlkKVKILCIHGKMKYK-RNKIFMEFRKLQS 337
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|...
gi 74181724 338 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:cd18787  79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 45-242 5.26e-47

DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) plays a role in ribosome biogenesis and TP53/p53 regulation through its interaction with NPM1. DDX31 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350707 [Multi-domain]  Cd Length: 214  Bit Score: 164.30  E-value: 5.26e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  45 LGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQ-VGAIVITPTRELAIQIDEVLSHF 123
Cdd:cd17949   9 MGIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQRLLSLEPRVDRSDgTLALVLVPTRELALQIYEVLEKL 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 124 TKHFPqfsqilWI------GGRNPGEDVERFKQhGGNIIVATPGRLEDMFrRKAEGLDlascVKSLDVLVLDEADRLLDM 197
Cdd:cd17949  89 LKPFH------WIvpgyliGGEKRKSEKARLRK-GVNILIATPGRLLDHL-KNTQSFD----VSNLRWLVLDEADRLLDM 156

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 74181724 198 GFEASINTILEFL-------------PKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17949 157 GFEKDITKILELLddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKDPVYID 214
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 34-390 9.62e-47

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 172.28  E-value: 9.62e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILE--ILLRREEKLKKNQVGAIVITPTRE 111
Cdd:PLN00206 128 LPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISrcCTIRSGHPSEQRNPLAMVLTPTRE 207

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  112 LAIQIDEVLSHFTKHFPqFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAEGLDLAScvksldVLVLDEA 191
Cdd:PLN00206 208 LCVQVEDQAKVLGKGLP-FKTALVVGGDAMPQQLYRIQQ-GVELIVGTPGRLIDLLSKHDIELDNVS------VLVLDEV 279

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  192 DRLLDMGFEASINTILEFLPkQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAASSTQKTPSRLEnhymickADE 271
Cdd:PLN00206 280 DCMLERGFRDQVMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVE-------TKQ 351

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  272 KFNQLVHFLRSRQQEK--HLVFFSTCACVEYYGKALeALLKKVKILCIHGK--MKyKRNKIFMEFRKLQSGILVCTDVMA 347
Cdd:PLN00206 352 KKQKLFDILKSKQHFKppAVVFVSSRLGADLLANAI-TVVTGLKALSIHGEksMK-ERREVMKSFLVGEVPVIVATGVLG 429

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 74181724  348 RGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:PLN00206 430 RGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFV 472
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 25-241 2.27e-46

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 162.47  E-value: 2.27e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  25 GAWESLQvpLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREeklKKNQVGAI 104
Cdd:cd17959   1 GGFQSMG--LSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLKAHS---PTVGARAL 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 105 VITPTRELAIQIdevlSHFTKHFPQFSQILW--IGGrnpGEDVER-FKQHGGN--IIVATPGRLedmFRRKAE-GLDLas 178
Cdd:cd17959  76 ILSPTRELALQT----LKVTKELGKFTDLRTalLVG---GDSLEEqFEALASNpdIIIATPGRL---LHLLVEmNLKL-- 143

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 74181724 179 cvKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd17959 144 --SSVEYVVFDEADRLFEMGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLI 204
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 33-243 2.42e-46

DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes Drosophila melanogaster Vasa, which is essential for development. DEAD box protein 3 (DDX3) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DDX3 and DDX4 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350725 [Multi-domain]  Cd Length: 221  Bit Score: 163.04  E-value: 2.42e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  33 PLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLrrEEKLKKNQVG-------AIV 105
Cdd:cd17967   6 GLRELLLENIKRAGYTKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPIISKLL--EDGPPSVGRGrrkaypsALI 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 106 ITPTRELAIQIDEVLSHFTKHFPQFSQILWiGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAEGLdlascvKSLDV 185
Cdd:cd17967  84 LAPTRELAIQIYEEARKFSYRSGVRSVVVY-GGADVVHQQLQLLR-GCDILVATPGRLVDFIERGRISL------SSIKF 155

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74181724 186 LVLDEADRLLDMGFEASINTILEF--LPK--QRRTGLFSATQTQEVENLVRAGLRNPVRISV 243
Cdd:cd17967 156 LVLDEADRMLDMGFEPQIRKIVEHpdMPPkgERQTLMFSATFPREIQRLAADFLKNYIFLTV 217
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 34-239 3.39e-46

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 161.98  E-value: 3.39e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILE-ILLRREEKLKKNQVGAIVITPTREL 112
Cdd:cd17961   1 LDPRLLKAIAKLGWEKPTLIQSKAIPLALEGKDILARARTGSGKTAAYALPIIQkILKAKAESGEEQGTRALILVPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 113 AIQIDEVLSHFTKHFPQFSQILWIGGrNPGEDVERFKQHGG-NIIVATPGRLEDMFRRKAEGLdlascVKSLDVLVLDEA 191
Cdd:cd17961  81 AQQVSKVLEQLTAYCRKDVRVVNLSA-SSSDSVQRALLAEKpDIVVSTPARLLSHLESGSLLL-----LSTLKYLVIDEA 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 74181724 192 DRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPV 239
Cdd:cd17961 155 DLVLSYGYEEDLKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHNPA 202
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 38-241 5.02e-46

DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts with several spliceosomal proteins and may recognize the bacterial second messengers cyclic di-GMP and cyclic di-AMP, resulting in the induction of genes involved in the innate immune response. Diseases associated with DDX41 include "myeloproliferative/lymphoproliferative neoplasms, familial" and "Ddx41-related susceptibility to familial myeloproliferative/lymphoproliferative neoplasms". DDX41 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350709 [Multi-domain]  Cd Length: 206  Bit Score: 161.74  E-value: 5.02e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKL---KKNQVGAIVITPTRELAI 114
Cdd:cd17951   1 ILKGLKKKGIKKPTPIQMQGLPTILSGRDMIGIAFTGSGKTLVFTLPLIMFALEQEKKLpfiKGEGPYGLIVCPSRELAR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 115 QIDEVLSHFTKH-----FPQFSQILWIGGRNPGEDVERFKqHGGNIIVATPGRLEDMFRRKAEGLDLasCvkslDVLVLD 189
Cdd:cd17951  81 QTHEVIEYYCKAlqeggYPQLRCLLCIGGMSVKEQLEVIR-KGVHIVVATPGRLMDMLNKKKINLDI--C----RYLCLD 153

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 74181724 190 EADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd17951 154 EADRMIDMGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTV 205
PTZ00424 PTZ00424
helicase 45; Provisional
 46-394 7.10e-46

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 167.31  E-value: 7.10e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   46 GFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILlrrEEKLKKNQVgaIVITPTRELAIQIDEVlshfTK 125
Cdd:PTZ00424  47 GFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLI---DYDLNACQA--LILAPTRELAQQIQKV----VL 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  126 HFPQFSQI---LWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAEGLDlascvkSLDVLVLDEADRLLDMGFEAS 202
Cdd:PTZ00424 118 ALGDYLKVrchACVGGTVVRDDINKLKA-GVHMVVGTPGRVYDMIDKRHLRVD------DLKLFILDEADEMLSRGFKGQ 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  203 INTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTPSRLENHYMICKADE-KFNQLVHFLR 281
Cdd:PTZ00424 191 IYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKD-------ELTLEGIRQFYVAVEKEEwKFDTLCDLYE 263

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  282 SRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQ 360
Cdd:PTZ00424 264 TLTITQAIIYCNTRRKVDYLTKKMHE--RDFTVSCMHGDMDQKdRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVIN 341

                        330       340       350
                 ....*....|....*....|....*....|....
gi 74181724  361 YDPPSNASAFVHRCGRTARIGHGGSALVFLLPME 394
Cdd:PTZ00424 342 YDLPASPENYIHRIGRSGRFGRKGVAINFVTPDD 375
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 28-239 2.27e-44

DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350713 [Multi-domain]  Cd Length: 204  Bit Score: 157.00  E-value: 2.27e-44
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  28 ESLqvPLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEillrreeKLKKNQVG--AIV 105
Cdd:cd17955   2 EDL--GLSSWLVKQCASLGIKEPTPIQKLCIPEILAGRDVIGGAKTGSGKTAAFALPILQ-------RLSEDPYGifALV 72

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 106 ITPTRELAIQIDEVLSHFTKhFPQFSQILWIGGRNPGEDVERFKQ--HggnIIVATPGRLEDMFRrkaEGLDLASCVKSL 183
Cdd:cd17955  73 LTPTRELAYQIAEQFRALGA-PLGLRCCVIVGGMDMVKQALELSKrpH---IVVATPGRLADHLR---SSDDTTKVLSRV 145

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 74181724 184 DVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPV 239
Cdd:cd17955 146 KFLVLDEADRLLTGSFEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKPF 201
DEXDc smart00487
DEAD-like helicases superfamily;
42-246 1.43e-43

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 154.57  E-value: 1.43e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724     42 LRELGFPHMTPVQSATIPLFMKN-KDVAAEAVTGSGKTLAFVIPILEILLRREEKlkknqvGAIVITPTRELAIQIDEVL 120
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG------RVLVLVPTRELAEQWAEEL 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724    121 SHFTKHFPqFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEGLdlascvKSLDVLVLDEADRLLDMGFE 200
Cdd:smart00487  75 KKLGPSLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSL------SNVDLVILDEAHRLLDGGFG 147

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 74181724    201 ASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEK 246
Cdd:smart00487 148 DQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 34-241 4.68e-43

DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or p54) participates in mRNA regulation mediated by miRNA-mediated silencing. It also plays a role in global and transcript-specific messenger RNA (mRNA) storage, translational repression, and decay. It is a member of the DEAD-box helicase family, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350698 [Multi-domain]  Cd Length: 201  Bit Score: 153.22  E-value: 4.68e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILlrreeKLKKNQVGAIVITPTRELA 113
Cdd:cd17940   6 LKRELLMGIFEKGFEKPSPIQEESIPIALSGRDILARAKNGTGKTGAYLIPILEKI-----DPKKDVIQALILVPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 114 IQIDEVLSHFTKHfPQFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAegLDLASCVksldVLVLDEADR 193
Cdd:cd17940  81 LQTSQVCKELGKH-MGVKVMVTTGGTSLRDDIMRLYQ-TVHVLVGTPGRILDLAKKGV--ADLSHCK----TLVLDEADK 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 74181724 194 LLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd17940 153 LLSQDFQPIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNPYEI 200
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 38-242 2.11e-41

DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor 3B-Associated 125 kDa Protein, RHELP, or RNAHP) is an NTPase with a preference for ATP, the hydrolysis of which is enhanced by various RNA substrates. It acts as a non-processive RNA helicase with protein displacement and RNA annealing activities. DDX42 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350710 [Multi-domain]  Cd Length: 197  Bit Score: 148.72  E-value: 2.11e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQVGAIVITPTRELAIQID 117
Cdd:cd17952   1 LLNAIRKQEYEQPTPIQAQALPVALSGRDMIGIAKTGSGKTAAFIWPMLVHIMDQRELEKGEGPIAVIVAPTRELAQQIY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 118 EVLSHFTKHFpQFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAEGLDLAScvksldVLVLDEADRLLDM 197
Cdd:cd17952  81 LEAKKFGKAY-NLRVVAVYGGGSKWEQAKALQE-GAEIVVATPGRLIDMVKKKATNLQRVT------YLVLDEADRMFDM 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 74181724 198 GFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17952 153 GFEYQVRSIVGHVRPDRQTLLFSATFKKKIEQLARDILSDPIRVV 197
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 38-255 5.24e-41

DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box protein, which shows little similarity to any of the other known human DEAD box proteins, but shows a high similarity to mouse Ddx24 at the amino acid level. MDM2 mediates nonproteolytic polyubiquitylation of the DEAD-Box RNA helicase DDX24. DDX24 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350704 [Multi-domain]  Cd Length: 235  Bit Score: 148.93  E-value: 5.24e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKN-KDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQ----VGAIVITPTREL 112
Cdd:cd17946   1 ILRALADLGFSEPTPIQALALPAAIRDgKDVIGAAETGSGKTLAFGIPILERLLSQKSSNGVGGkqkpLRALILTPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 113 AIQIDEVLSHFTKHfPQFSQILWIGGRNPgEDVERFKQHGGNIIVATPGRLEDMFrrkAEGLDLASCVKSLDVLVLDEAD 192
Cdd:cd17946  81 AVQVKDHLKAIAKY-TNIKIASIVGGLAV-QKQERLLKKRPEIVVATPGRLWELI---QEGNEHLANLKSLRFLVLDEAD 155

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 193 RLLDMGFEASINTILEFLP-------KQRRTGLFSATQTQEvenlvragLRNPVRISVKEKGVAASSTQK 255
Cdd:cd17946 156 RMLEKGHFAELEKILELLNkdragkkRKRQTFVFSATLTLD--------HQLPLKLNSKKKKKKKEKKQK 217
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 42-243 1.24e-40

DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ubiquitously expressed in testis, endometrium, and other tissues in humans. DDX52 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350715 [Multi-domain]  Cd Length: 198  Bit Score: 146.58  E-value: 1.24e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  42 LRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREeklKKNQVGAIVITPTRELAIQIDEVLS 121
Cdd:cd17957   5 LEESGYREPTPIQMQAIPILLHGRDLLACAPTGSGKTLAFLIPILQKLGKPR---KKKGLRALILAPTRELASQIYRELL 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 122 HFTKHFPQFSQILWIGGRNPGEDVERFKQHgGNIIVATPGRLEDMFRRKAegLDLAscvkSLDVLVLDEADRLLDMGFEA 201
Cdd:cd17957  82 KLSKGTGLRIVLLSKSLEAKAKDGPKSITK-YDILVSTPLRLVFLLKQGP--IDLS----SVEYLVLDEADKLFEPGFRE 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 74181724 202 SINTILEFLP-KQRRTGLFSATQTQEVENLVRAGLRNPVRISV 243
Cdd:cd17957 155 QTDEILAACTnPNLQRSLFSATIPSEVEELARSVMKDPIRIIV 197
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 31-241 1.38e-39

DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) is a component of the 17S U2 snRNP complex. It plays an important role in pre-mRNA splicing and has a role in antiviral innate immunity. DDX46 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350711 [Multi-domain]  Cd Length: 222  Bit Score: 144.44  E-value: 1.38e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  31 QVPLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIL-EILLRREEKLKKNQVGaIVITPT 109
Cdd:cd17953  16 QCGLSEKVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLPMFrHIKDQRPVKPGEGPIG-LIMAPT 94

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 110 RELAIQIdevlshfTKHFPQFSQILWI------GGRNPGEDVERFKQhGGNIIVATPGRLEDMFrrKAEGLDLAScVKSL 183
Cdd:cd17953  95 RELALQI-------YVECKKFSKALGLrvvcvyGGSGISEQIAELKR-GAEIVVCTPGRMIDIL--TANNGRVTN-LRRV 163

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 74181724 184 DVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd17953 164 TYVVLDEADRMFDMGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKPIEI 221
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 33-241 4.49e-39

DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation factor-4A (eIF4A) family consists of 3 proteins EIF4A1, EIF4A2, and EIF4A3. These factors are required for the binding of mRNA to 40S ribosomal subunits. In addition these proteins are helicases that function to unwind double-stranded RNA. EIF4A proteins are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350697 [Multi-domain]  Cd Length: 199  Bit Score: 142.46  E-value: 4.49e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  33 PLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKknqvgAIVITPTREL 112
Cdd:cd17939   3 GLSEDLLRGIYAYGFEKPSAIQQRAIVPIIKGRDVIAQAQSGTGKTATFSIGALQRIDTTVRETQ-----ALVLAPTREL 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 113 AIQIDEVLSHFTKHFPQFSQILwIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAegldlaSCVKSLDVLVLDEAD 192
Cdd:cd17939  78 AQQIQKVVKALGDYMGVKVHAC-IGGTSVREDRRKLQY-GPHIVVGTPGRVFDMLQRRS------LRTDKIKMFVLDEAD 149

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*....
gi 74181724 193 RLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd17939 150 EMLSRGFKDQIYDIFQFLPPETQVVLFSATMPHEVLEVTKKFMRDPVRI 198
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 31-236 6.13e-39

DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DEAD-box helicases are a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350810 [Multi-domain]  Cd Length: 264  Bit Score: 143.95  E-value: 6.13e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  31 QVPLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRreEKLKKNQVG------AI 104
Cdd:cd18052  47 EANLCETLLKNIRKAGYEKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPVLTGMMK--EGLTASSFSevqepqAL 124

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 105 VITPTRELAIQIDEVLSHFTKHFPQFSQILWiGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAEGLdlascvKSLD 184
Cdd:cd18052 125 IVAPTRELANQIFLEARKFSYGTCIRPVVVY-GGVSVGHQIRQIEK-GCHILVATPGRLLDFIGRGKISL------SKLK 196

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 74181724 185 VLVLDEADRLLDMGFEASINTILEFL---PKQRR-TGLFSATQTQEVENLVRAGLR 236
Cdd:cd18052 197 YLILDEADRMLDMGFGPEIRKLVSEPgmpSKEDRqTLMFSATFPEEIQRLAAEFLK 252
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 38-242 7.51e-39

DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, Component Of Gems 3, Gemin-3, and SMN-Interacting Protein) interacts directly with SMN (survival of motor neurons), the spinal muscular atrophy gene product, and may play a catalytic role in the function of the SMN complex on ribonucleoproteins. Diseases associated with DDX20 include spinal muscular atrophy and muscular atrophy. DDX20 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350701 [Multi-domain]  Cd Length: 192  Bit Score: 141.63  E-value: 7.51e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRReeklkKNQVGAIVITPTRELAIQID 117
Cdd:cd17943   1 VLEGLKAAGFQRPSPIQLAAIPLGLAGHDLIVQAKSGTGKTLVFVVIALESLDLE-----RRHPQVLILAPTREIAVQIH 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 118 EVLSHFTKHFPQFSQILWIGGRNPGEDVERFKqhGGNIIVATPGRLEDMFRrkaeglDLASCVKSLDVLVLDEADRLLDM 197
Cdd:cd17943  76 DVFKKIGKKLEGLKCEVFIGGTPVKEDKKKLK--GCHIAVGTPGRIKQLIE------LGALNVSHVRLFVLDEADKLMEG 147

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 74181724 198 GFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17943 148 SFQKDVNWIFSSLPKNKQVIAFSATYPKNLDNLLARYMRKPVLVR 192
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 36-239 8.92e-38

DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. It possesses 5' single-stranded RNA overhang nuclease activity as well as ATPase activity on various RNA, but not DNA polynucleotides. DDX1 may play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. It may also be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. DDX1 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350696 [Multi-domain]  Cd Length: 204  Bit Score: 138.99  E-value: 8.92e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  36 PRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEIllrreeklkknqVGAIVITPTRELAIQ 115
Cdd:cd17938   8 PELIKAVEELDWLLPTDIQAEAIPLILGGGDVLMAAETGSGKTGAFCLPVLQI------------VVALILEPSRELAEQ 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 116 IDEVLSHFTKHF--PQFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFrrKAEGLDLASCvkslDVLVLDEADR 193
Cdd:cd17938  76 TYNCIENFKKYLdnPKLRVALLIGGVKAREQLKRLES-GVDIVVGTPGRLEDLI--KTGKLDLSSV----RFFVLDEADR 148

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|...
gi 74181724 194 LLDMGFEASINTILEFLPKQRRTG------LFSAT-QTQEVENLVRAGLRNPV 239
Cdd:cd17938 149 LLSQGNLETINRIYNRIPKITSDGkrlqviVCSATlHSFEVKKLADKIMHFPT 201
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 38-242 2.26e-37

DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350724 [Multi-domain]  Cd Length: 197  Bit Score: 137.50  E-value: 2.26e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIP-ILEI----LLRREEklkknqvGAI--VITPTR 110
Cdd:cd17966   1 VMDELKRQGFTEPTAIQAQGWPMALSGRDMVGIAQTGSGKTLAFLLPaIVHInaqpPLERGD-------GPIvlVLAPTR 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 111 ELAIQIDEVLSHFTKHFPQFSQILWiGGRNPGEDVeRFKQHGGNIIVATPGRLEDMFRRKAEGLdlascvKSLDVLVLDE 190
Cdd:cd17966  74 ELAQQIQQEANKFGGSSRLRNTCVY-GGAPKGPQI-RDLRRGVEICIATPGRLIDFLDQGKTNL------RRVTYLVLDE 145

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 74181724 191 ADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17966 146 ADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRRLAEDFLKDYIQVN 197
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 51-237 4.72e-37

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 138.25  E-value: 4.72e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  51 TPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIL-EILLRREEKLKKNQVG----------AIVITPTRELAIQI-DE 118
Cdd:cd18051  45 TPVQKHAIPIIKSKRDLMACAQTGSGKTAAFLLPILsQIYEQGPGESLPSESGyygrrkqyplALVLAPTRELASQIyDE 124

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 119 vlshfTKHFPQFSQI---LWIGGRNPGE---DVERfkqhGGNIIVATPGRLEDMFRRKAEGLDlasCVKsldVLVLDEAD 192
Cdd:cd18051 125 -----ARKFAYRSRVrpcVVYGGADIGQqmrDLER----GCHLLVATPGRLVDMLERGKIGLD---YCK---YLVLDEAD 189

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*....
gi 74181724 193 RLLDMGFEASINTILE--FLPK--QRRTGLFSATQTQEVENLVRAGLRN 237
Cdd:cd18051 190 RMLDMGFEPQIRRIVEqdTMPPtgERQTLMFSATFPKEIQMLARDFLDN 238
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 38-241 8.76e-37

DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis antigen 13 or helical antigen) displays tumor-specific expression. Diseases associated with DDX43 include rheumatoid lung disease. DDX53 is also called cancer/testis antigen 26 or DEAD-Box Protein CAGE. Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350716 [Multi-domain]  Cd Length: 197  Bit Score: 136.05  E-value: 8.76e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIP-ILEILLRREEKLKKNQVGAIVITPTRELAIQI 116
Cdd:cd17958   1 IMKEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPgFIHLDLQPIPREQRNGPGVLVLTPTRELALQI 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 117 DEVLSHFTkhFPQFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFrrkaegLDLASCVKSLDVLVLDEADRLLD 196
Cdd:cd17958  81 EAECSKYS--YKGLKSVCVYGGGNRNEQIEDLSK-GVDIIIATPGRLNDLQ------MNNVINLKSITYLVLDEADRMLD 151

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 74181724 197 MGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd17958 152 MGFEPQIRKILLDIRPDRQTIMTSATWPDGVRRLAQSYLKDPMIV 196
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 34-243 2.12e-36

DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and is required for the export of mRNA out of the nucleus. DDX39B is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. Diseases associated with DDX39A (also called UAP56-Related Helicase, 49 kDa) include gastrointestinal stromal tumor and inflammatory bowel disease 6, while diseases associated with DDX39B (also called 56 kDa U2AF65-Associated Protein) include Plasmodium vivax malaria. DDX39 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350708 [Multi-domain]  Cd Length: 208  Bit Score: 135.17  E-value: 2.12e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILlrreeKLKKNQVGAIVITPTRELA 113
Cdd:cd17950   9 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQL-----EPVDGQVSVLVICHTRELA 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 114 IQIDEVLSHFTKHFPQFSQILWIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAegLDLascvKSLDVLVLDEADR 193
Cdd:cd17950  84 FQISNEYERFSKYMPNVKTAVFFGGVPIKKDIEVLKNKCPHIVVGTPGRILALVREKK--LKL----SHVKHFVLDECDK 157

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 74181724 194 LL-DMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 243
Cdd:cd17950 158 MLeQLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPLEIFV 208
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 42-242 3.72e-35

DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer development by promoting DNA replication. DDX59 knockdown mice showed reduced cell proliferation, anchorage-independent cell growth, and reduction of tumor formation. Recent work shows that EGFR and Ras regulate DDX59 during lung cancer development. Diseases associated with DDX59 (also called zinc finger HIT domain-containing protein 5) include orofaciodigital syndrome V and orofaciodigital syndrome. DDX59 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350720 [Multi-domain]  Cd Length: 193  Bit Score: 131.13  E-value: 3.72e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  42 LRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRreeklKKNQVGAIVITPTRELAIQIDEVLS 121
Cdd:cd17962   5 LKKAGYEVPTPIQMQMIPVGLLGRDILASADTGSGKTAAFLLPVIIRCLT-----EHRNPSALILTPTRELAVQIEDQAK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 122 HFTKHFPQFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAEGLDlascvkSLDVLVLDEADRLLDMGFEA 201
Cdd:cd17962  80 ELMKGLPPMKTALLVGGLPLPPQLYRLQQ-GVKVIIATPGRLLDILKQSSVELD------NIKIVVVDEADTMLKMGFQQ 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|.
gi 74181724 202 SINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 242
Cdd:cd17962 153 QVLDILENISHDHQTILVSATIPRGIEQLAGQLLQNPVRIT 193
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 41-238 9.94e-35

DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by regulating multiple signalling pathways. Mammalian DEAD box protein Ddx51 acts in 3' end maturation of 28S rRNA by promoting the release of U8 snoRNA.It is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350714 [Multi-domain]  Cd Length: 231  Bit Score: 131.22  E-value: 9.94e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  41 ALRELGFPHMTPVQSATIPLFMKN---------KDVAAEAVTGSGKTLAFVIPILEILLRReeklKKNQVGAIVITPTRE 111
Cdd:cd17956   4 NLQNNGITSAFPVQAAVIPWLLPSskstppyrpGDLCVSAPTGSGKTLAYVLPIVQALSKR----VVPRLRALIVVPTKE 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 112 LAIQIDEVLSHFTKHFPqfSQILWIGGRN--PGEDVERFKQHGGN------IIVATPGRLEDMFRRKaEGLDLascvKSL 183
Cdd:cd17956  80 LVQQVYKVFESLCKGTG--LKVVSLSGQKsfKKEQKLLLVDTSGRylsrvdILVATPGRLVDHLNST-PGFTL----KHL 152

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 74181724 184 DVLVLDEADRLLDMGFE--------------------ASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP 238
Cdd:cd17956 153 RFLVIDEADRLLNQSFQdwletvmkalgrptapdlgsFGDANLLERSVRPLQKLLFSATLTRDPEKLSSLKLHRP 227
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 46-241 2.21e-31

DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor 4A-III (EIF4AIII, also known as DDX48) is part of the exon junction complex (EJC) that plays a major role in posttranscriptional regulation of mRNA. EJC consists of four proteins (eIF4AIII, Barentsz [Btz], Mago, and Y14), mRNA, and ATP. DDX48 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350803 [Multi-domain]  Cd Length: 201  Bit Score: 121.04  E-value: 2.21e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  46 GFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILlrrEEKLKKNQVgaIVITPTRELAIQIDEVLSHFTk 125
Cdd:cd18045  18 GFEKPSAIQQRAIKPIIKGRDVIAQSQSGTGKTATFSISVLQCL---DIQVRETQA--LILSPTRELAVQIQKVLLALG- 91

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 126 HFPQFSQILWIGGRNPGEDVERFkQHGGNIIVATPGRLEDMFRRKAEGldlascVKSLDVLVLDEADRLLDMGFEASINT 205
Cdd:cd18045  92 DYMNVQCHACIGGTSVGDDIRKL-DYGQHIVSGTPGRVFDMIRRRSLR------TRHIKMLVLDEADEMLNKGFKEQIYD 164

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 74181724 206 ILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd18045 165 VYRYLPPATQVVLVSATLPQDILEMTNKFMTDPIRI 200
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 34-241 2.71e-30

DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation factor 4A-I (DDX2A) and eukaryotic initiation factor 4A-II (DDX2B) are involved in cap recognition and are required for mRNA binding to ribosome. They are DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350804 [Multi-domain]  Cd Length: 201  Bit Score: 117.93  E-value: 2.71e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEillRREEKLKKNQvgAIVITPTRELA 113
Cdd:cd18046   6 LKESLLRGIYAYGFEKPSAIQQRAIMPCIKGYDVIAQAQSGTGKTATFSISILQ---QIDTSLKATQ--ALVLAPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 114 IQIDEVLSHFTKHFpQFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAegLDlascVKSLDVLVLDEADR 193
Cdd:cd18046  81 QQIQKVVMALGDYM-GIKCHACIGGTSVRDDAQKLQA-GPHIVVGTPGRVFDMINRRY--LR----TDYIKMFVLDEADE 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 74181724 194 LLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd18046 153 MLSRGFKDQIYDIFQKLPPDTQVVLLSATMPNDVLEVTTKFMRDPIRI 200
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 34-241 8.74e-30

DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called DEAD box RNA helicase DEAD5) and DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH)) are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350721 [Multi-domain]  Cd Length: 196  Bit Score: 116.14  E-value: 8.74e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKN--KDVAAEAVTGSGKTLAFVIPILEillRREEKLKKNQvgAIVITPTRE 111
Cdd:cd17963   1 LKPELLKGLYAMGFNKPSKIQETALPLILSDppENLIAQSQSGTGKTAAFVLAMLS---RVDPTLKSPQ--ALCLAPTRE 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 112 LAIQIDEVLSHFTKhFPQFSQILWIggrnPGEDVERFKQHGGNIIVATPGRLEDMFRRKAegLDLascvKSLDVLVLDEA 191
Cdd:cd17963  76 LARQIGEVVEKMGK-FTGVKVALAV----PGNDVPRGKKITAQIVIGTPGTVLDWLKKRQ--LDL----KKIKILVLDEA 144

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 74181724 192 DRLLDM-GFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 241
Cdd:cd17963 145 DVMLDTqGHGDQSIRIKRMLPRNCQILLFSATFPDSVRKFAEKIAPNANTI 195
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 271-381 1.65e-27

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 106.91  E-value: 1.65e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   271 EKFNQLVHFLRSRQQEKHLVFFSTCACVEyygkaLEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMA 347
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLE-----AELLLEKegIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAE 75

                          90       100       110
                  ....*....|....*....|....*....|....
gi 74181724   348 RGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 381
Cdd:pfam00271  76 RGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 38-243 2.87e-27

DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, G17P1, or HUMP68) is involved in pathways that include the alteration of RNA structures, plays a role as a coregulator of transcription, a regulator of splicing, and in the processing of small noncoding RNAs. It synergizes with DDX17 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. Dysregulation of this gene may play a role in cancer development. DDX5 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350807 [Multi-domain]  Cd Length: 234  Bit Score: 110.48  E-value: 2.87e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILeILLRREEKLKKNQvGAI--VITPTRELAIQ 115
Cdd:cd18049  35 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAI-VHINHQPFLERGD-GPIclVLAPTRELAQQ 112

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 116 IDEVLSHFTKHFPQFSQILWiGGRNPG---EDVERfkqhGGNIIVATPGRLEDMFrrKAEGLDLASCVksldVLVLDEAD 192
Cdd:cd18049 113 VQQVAAEYGRACRLKSTCIY-GGAPKGpqiRDLER----GVEICIATPGRLIDFL--EAGKTNLRRCT----YLVLDEAD 181

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 74181724 193 RLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 243
Cdd:cd18049 182 RMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 232
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 38-243 3.32e-27

DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or DEAD Box Protein P82) has a wide variety of functions including regulating the alternative splicing of exons exhibiting specific features such as the inclusion of AC-rich alternative exons in CD44 transcripts, playing a role in innate immunity, and promoting mRNA degradation mediated by the antiviral zinc-finger protein ZC3HAV1 in an ATPase-dependent manner. DDX17 synergizes with DDX5 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. DDX17 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350808 [Multi-domain]  Cd Length: 271  Bit Score: 111.26  E-value: 3.32e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILeILLRREEKLKKNQvGAI--VITPTRELAIQ 115
Cdd:cd18050  73 VMDVLLDQNFKEPTPIQCQGFPLALSGRDMVGIAQTGSGKTLAYLLPAI-VHINHQPYLERGD-GPIclVLAPTRELAQQ 150

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 116 IDEVLSHFTKHFPQFSQILWiGGRNPGEDVeRFKQHGGNIIVATPGRLEDMFrrKAEGLDLASCVksldVLVLDEADRLL 195
Cdd:cd18050 151 VQQVADDYGKSSRLKSTCIY-GGAPKGPQI-RDLERGVEICIATPGRLIDFL--EAGKTNLRRCT----YLVLDEADRML 222

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 74181724 196 DMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 243
Cdd:cd18050 223 DMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQINI 270
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 38-266 4.76e-26

DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box polypeptide 28) plays an essential role in facilitating the proper assembly of the mitochondrial large ribosomal subunit and its helicase activity is essential for this function. DDX28 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350706 [Multi-domain]  Cd Length: 231  Bit Score: 106.68  E-value: 4.76e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  38 VLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREE--KLKKNQVGAIVITPTRELAIQ 115
Cdd:cd17948   1 LVEILQRQGITKPTTVQKQGIPSILRGRNTLCAAETGSGKTLTYLLPIIQRLLRYKLlaEGPFNAPRGLVITPSRELAEQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 116 IDEVLSHFTKHFPQFSQILwIGGRNPGeDVERFKQHGGNIIVATPGRLEDMFRRKAEGLDLASCvksldvLVLDEADRLL 195
Cdd:cd17948  81 IGSVAQSLTEGLGLKVKVI-TGGRTKR-QIRNPHFEEVDILVATPGALSKLLTSRIYSLEQLRH------LVLDEADTLL 152

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 74181724 196 DMGFEASINTILE-----FLPKQRRTGLFSATQtqevenLVRAGLRNPVRIS-VKEKGVAASSTQKTPSRLENHYMI 266
Cdd:cd17948 153 DDSFNEKLSHFLRrfplaSRRSENTDGLDPGTQ------LVLVSATMPSGVGeVLSKVIDVDSIETVTSDKLHRLMP 223
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 42-236 6.77e-25

DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and nucleolar RNA helicase 2) is an RNA helicase that acts as a sensor of the transcriptional status of both RNA polymerase (Pol) I and II. It promotes ribosomal RNA (rRNA) processing and transcription from polymerase II (Pol II) and binds various RNAs, such as rRNAs, snoRNAs, 7SK and, at lower extent, mRNAs. DDX50 (also called Gu-Beta, Nucleolar Protein Gu2, and malignant cell derived RNA helicase). DDX21 and DDX50 have similar genomic structures and are in tandem orientation on chromosome 10, suggesting that the two genes arose by gene duplication in evolution. Diseases associated with DDX21 include stomach disease and cerebral creatine deficiency syndrome 3. Diseases associated with DDX50 include rectal disease. Both are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. Their name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350702 [Multi-domain]  Cd Length: 202  Bit Score: 102.62  E-value: 6.77e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  42 LRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNQV-GAIVITPTRELAIQIDEVL 120
Cdd:cd17944   5 LQARGVTYLFPIQVKTFHPVYSGKDLIAQARTGTGKTFSFAIPLIEKLQEDQQPRKRGRApKVLVLAPTRELANQVTKDF 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 121 SHFTKhfpQFSQILWIGGRNPGEDVERFKQhGGNIIVATPGRLEDMFRRKAegLDLAscvkSLDVLVLDEADRLLDMGFE 200
Cdd:cd17944  85 KDITR---KLSVACFYGGTPYQQQIFAIRN-GIDILVGTPGRIKDHLQNGR--LDLT----KLKHVVLDEVDQMLDMGFA 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|.
gi 74181724 201 ASINTILEFLPKQR-----RTGLFSATQTQEVENLVRAGLR 236
Cdd:cd17944 155 EQVEEILSVSYKKDsednpQTLLFSATCPDWVYNVAKKYMK 195
HELICc smart00490
helicase superfamily c-terminal domain;
305-381 1.12e-22

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 92.27  E-value: 1.12e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724    305 LEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 381
Cdd:smart00490   3 LAELLKElgIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 423-480 1.27e-21

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 88.22  E-value: 1.27e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 74181724   423 PKLRAMALADRAVFEKGMKAFVSFVQAYAKHECSLIFRLKDLDFAGLARGFALLRMPR 480
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 31-241 6.08e-19

DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 (MRH4) plays an essential role during the late stages of mitochondrial ribosome or mitoribosome assembly by promoting remodeling of the 21S rRNA-protein interactions. MRH4 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350723 [Multi-domain]  Cd Length: 251  Bit Score: 86.66  E-value: 6.08e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  31 QVPLHPRV---------LGALRELGFPHMTPVQSATIPLFMKN---------KD---------VAAEavTGSGKTLAFVI 83
Cdd:cd17965   3 QLKLLPSVreaiikeilKGSNKTDEEIKPSPIQTLAIKKLLKTlmrkvtkqtSNeepklevflLAAE--TGSGKTLAYLA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  84 PILEILLRREEKLKKN------------QVGAIVITPTRELAIQIDEVLSHFtKHFPQFS--QILWIGGRNPGEDVERFK 149
Cdd:cd17965  81 PLLDYLKRQEQEPFEEaeeeyesakdtgRPRSVILVPTHELVEQVYSVLKKL-SHTVKLGikTFSSGFGPSYQRLQLAFK 159

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 150 QhGGNIIVATPGRLEDMFRRKAEGLdlascvKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVEN 229
Cdd:cd17965 160 G-RIDILVTTPGKLASLAKSRPKIL------SRVTHLVVDEADTLFDRSFLQDTTSIIKRAPKLKHLILCSATIPKEFDK 232

                       250
                ....*....|..
gi 74181724 230 LVRAGLRNPVRI 241
Cdd:cd17965 233 TLRKLFPDVVRI 244
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
63-390 1.89e-17

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 85.85  E-value: 1.89e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  63 KNKDVAAEAVTGSGKTLAFVIPILEILLRREeklkknqvgAIVITPTRELAIQIdevLSHFTKHFPQFsqilwiggrnpg 142
Cdd:COG1061  99 GGGRGLVVAPTGTGKTVLALALAAELLRGKR---------VLVLVPRRELLEQW---AEELRRFLGDP------------ 154

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 143 EDVERFKQHGGNIIVATPgrleDMFRRKAEgldLASCVKSLDVLVLDEADRLLDMGFEAsintILEFLPKQRRTGLfSAT 222
Cdd:COG1061 155 LAGGGKKDSDAPITVATY----QSLARRAH---LDELGDRFGLVIIDEAHHAGAPSYRR----ILEAFPAAYRLGL-TAT 222

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 223 ------QTQEVEN------------LVRAG-LRNPVRISVKEKGVAASSTQKTPSRLENHYMICKADEKFNQLVHFLRSR 283
Cdd:COG1061 223 pfrsdgREILLFLfdgivyeyslkeAIEDGyLAPPEYYGIRVDLTDERAEYDALSERLREALAADAERKDKILRELLREH 302

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 284 QQEKH-LVFFSTCACVEYYGKALEAllKKVKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQY 361
Cdd:COG1061 303 PDDRKtLVFCSSVDHAEALAELLNE--AGIRAAVVTGDTPKKeREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILL 380

                       330       340
                ....*....|....*....|....*....
gi 74181724 362 DPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:COG1061 381 RPTGSPREFIQRLGRGLRPAPGKEDALVY 409
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 64-222 4.26e-16

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 75.52  E-value: 4.26e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  64 NKDVAAEAVTGSGKTLAFVIPILEILLRREEKlkknqvgAIVITPTRELAIQIDEVLSHFTKHFPQFSQIlwIGGRNPGE 143
Cdd:cd00046   1 GENVLITAPTGSGKTLAALLAALLLLLKKGKK-------VLVLVPTKALALQTAERLRELFGPGIRVAVL--VGGSSAEE 71

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 144 DVERFKQHgGNIIVATPGRLEDMFRRkaeglDLASCVKSLDVLVLDEADRLLDMGFEASIN--TILEFLPKQRRTGLFSA 221
Cdd:cd00046  72 REKNKLGD-ADIIIATPDMLLNLLLR-----EDRLFLKDLKLIIVDEAHALLIDSRGALILdlAVRKAGLKNAQVILLSA 145


                .
gi 74181724 222 T 222
Cdd:cd00046 146 T 146
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 31-222 1.79e-13

DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both mRNA (mRNA) export from the nucleus into the cytoplasm and in mRNA translation. DDX19 functions in the nucleus in resolving RNA:DNA hybrids (R-loops). Activation of a DNA damage response pathway dependent upon the ATR kinase, a major regulator of replication fork progression, stimulates translocation of DDX19 from the cytoplasm into the nucleus. Only nuclear Ddx19 is competent to resolve R-loops. DDX19 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350805 [Multi-domain]  Cd Length: 205  Bit Score: 69.75  E-value: 1.79e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  31 QVPLHPRVLGALRELGFPHMTPVQSATIPLFMKN--KDVAAEAVTGSGKTLAFVIPILEILlrrEEKLKKNQvgAIVITP 108
Cdd:cd18047   5 ELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEppQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKYPQ--CLCLSP 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 109 TRELAIQIDEVLSHFTKHFPQFSQILWIGGRNpgedVERFKQHGGNIIVATPGRLEDmFRRKAEGLDlascVKSLDVLVL 188
Cdd:cd18047  80 TYELALQTGKVIEQMGKFYPELKLAYAVRGNK----LERGQKISEQIVIGTPGTVLD-WCSKLKFID----PKKIKVFVL 150

                       170       180       190
                ....*....|....*....|....*....|....*
gi 74181724 189 DEADRLL-DMGFEASINTILEFLPKQRRTGLFSAT 222
Cdd:cd18047 151 DEADVMIaTQGHQDQSIRIQRMLPRNCQMLLFSAT 185
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 34-246 1.91e-13

DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH) is a testis-specific protein essential for completion of spermatogenesis. DDX25 is also a novel negative regulator of IFN pathway and facilitates RNA virus infection. Diseases associated with DDX25 include hydrolethalus syndrome, an autosomal recessive lethal malformation syndrome characterized by multiple developmental defects of fetus.. DDX25 (also called gonadotropin-regulated testicular RNA helicase) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350806 [Multi-domain]  Cd Length: 229  Bit Score: 70.05  E-value: 1.91e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  34 LHPRVLGALRELGFPHMTPVQSATIPLFMKN--KDVAAEAVTGSGKTLAFVipiLEILLRREEKLKKNQvgAIVITPTRE 111
Cdd:cd18048  25 LKEELLRGIYAMGFNRPSKIQENALPMMLADppQNLIAQSQSGTGKTAAFV---LAMLSRVDALKLYPQ--CLCLSPTFE 99

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 112 LAIQIDEVLSHFTKHFPQFSQILWIGGRNPGEDVERFKQhggnIIVATPGRLED-MFRrkaegLDLAScVKSLDVLVLDE 190
Cdd:cd18048 100 LALQTGKVVEEMGKFCVGIQVIYAIRGNRPGKGTDIEAQ----IVIGTPGTVLDwCFK-----LRLID-VTNISVFVLDE 169

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 74181724 191 ADRLLDM-GFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEK 246
Cdd:cd18048 170 ADVMINVqGHSDHSVRVKRSMPKECQMLLFSATFEDSVWAFAERIVPDPNIIKLKKE 226
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
36-222 1.33e-10

Replicative superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 64.15  E-value: 1.33e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  36 PRVLGALRELGFPHMTPVQSATIP-LFMKNKDVAAEAVTGSGKTLafvipILEILLRREEKLKKNqvgAIVITPTRELAi 114
Cdd:COG1204   9 EKVIEFLKERGIEELYPPQAEALEaGLLEGKNLVVSAPTASGKTL-----IAELAILKALLNGGK---ALYIVPLRALA- 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 115 qiDEVLSHFTKHFPQFSQILWI--GGRNPG-EDVERFkqhggNIIVATPGRLEDMFRRKAEGLDlascvkSLDVLVLDEA 191
Cdd:COG1204  80 --SEKYREFKRDFEELGIKVGVstGDYDSDdEWLGRY-----DILVATPEKLDSLLRNGPSWLR------DVDLVVVDEA 146

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 74181724 192 dRLLD-----MGFEASINTILEFLPKQRRTGLfSAT 222
Cdd:COG1204 147 -HLIDdesrgPTLEVLLARLRRLNPEAQIVAL-SAT 180
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 8-399 1.70e-09

ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, recombination and repair];


Pssm-ID: 440818 [Multi-domain]  Cd Length: 758  Bit Score: 61.00  E-value: 1.70e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   8 RLKPAENRGRAMEHV-----TEGAWESLQVPLHPRVLGALRELGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFV 82
Cdd:COG1205  10 RLRASPRYGDQIVHVrtipaREARYAPWPDWLPPELRAALKKRGIERLYSHQAEAIEAARAGKNVVIATPTASGKSLAYL 89

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  83 IPILEILLR-REEKlkknqvgAIVITPTRELAI-QIDEvLSHFTKHFPQFSQILWIGGRNPGEDVERFKQHgGNIIVATP 160
Cdd:COG1205  90 LPVLEALLEdPGAT-------ALYLYPTKALARdQLRR-LRELAEALGLGVRVATYDGDTPPEERRWIREH-PDIVLTNP 160

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 161 grleDM-----------FRRkaegldlasCVKSLDVLVLDEA---------------DRLL--------DMGFEASINTI 206
Cdd:COG1205 161 ----DMlhygllphhtrWAR---------FFRNLRYVVIDEAhtyrgvfgshvanvlRRLRricrhygsDPQFILASATI 227

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 207 ---LEFLpkQRRTGlfsatqtQEVEnLV-----RAGLR-----NPvriSVKEKGVAASSTQKTpSRLENHYMickaDEKF 273
Cdd:COG1205 228 gnpAEHA--ERLTG-------RPVT-VVdedgsPRGERtfvlwNP---PLVDDGIRRSALAEA-ARLLADLV----REGL 289

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 274 NQLVhFLRSRQQEKHLvffstcacVEYYGKALEALLKKVKIlCIH--GKMKYKRNKIfmEfRKLQSG---ILVCTDVMAR 348
Cdd:COG1205 290 RTLV-FTRSRRGAELL--------ARYARRALREPDLADRV-AAYraGYLPEERREI--E-RGLRSGellGVVSTNALEL 356

                       410       420       430       440       450
                ....*....|....*....|....*....|....*....|....*....|....*
gi 74181724 349 GIDIPEVNWVLQYDPPSNASAFVHRCGRTARigHGGSALVFLL----PMEEAYIN 399
Cdd:COG1205 357 GIDIGGLDAVVLAGYPGTRASFWQQAGRAGR--RGQDSLVVLVagddPLDQYYVR 409
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 73-191 4.02e-09

DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350681 [Multi-domain]  Cd Length: 182  Bit Score: 56.44  E-value: 4.02e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  73 TGSGKTLAFVIPILEILLRReeklkkNQVGAIVITPTRELAI-QidevLSHFTKHFPQFSQILWIG---GRNPGEDVERF 148
Cdd:cd17923  24 TASGKSLCYQLPILEALLRD------PGSRALYLYPTKALAQdQ----LRSLRELLEQLGLGIRVAtydGDTPREERRAI 93

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 74181724 149 KQHGGNIIVATPGRLEDMFRRKAEGldLASCVKSLDVLVLDEA 191
Cdd:cd17923  94 IRNPPRILLTNPDMLHYALLPHHDR--WARFLRNLRYVVLDEA 134
ComFA COG4098
Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, ...
 71-378 5.27e-09

Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, recombination and repair];


Pssm-ID: 443274 [Multi-domain]  Cd Length: 451  Bit Score: 58.73  E-value: 5.27e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  71 AVTGSGKT-LAFviPILEILLRReeklkKNQVGaiVITPTRELAIqidEVLSHFTKHFPQFSQILWIGGrnpGEDVERFK 149
Cdd:COG4098 136 AVCGAGKTeMLF--PAIAEALKQ-----GGRVC--IATPRVDVVL---ELAPRLQQAFPGVDIAALYGG---SEEKYRYA 200

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 150 QhggnIIVATPG---RLEDMFrrkaegldlascvkslDVLVLDEADrlldmGFEASINTILEFLPKQ-RRTG----LFSA 221
Cdd:COG4098 201 Q----LVIATTHqllRFYQAF----------------DLLIIDEVD-----AFPYSGDPMLQYAVKRaRKPDgkliYLTA 255

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 222 TQTQEVENLVRAGLRNPVRIsvkekgvaasstqktPSRLENH-----YMI-CKADEK-------FNQLVHFLRSRQQEKH 288
Cdd:COG4098 256 TPSKALQRQVKRGKLKVVKL---------------PARYHGHplpvpKFKwLGNWKKrlrrgklPRKLLKWLKKRLKEGR 320

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 289 --LVFFSTCACVEYYGKALEALLKKVKILCIHGKMKYKRNKIfMEFRKLQSGILVCTDVMARGIDIPEVN-WVLQYDPPS 365
Cdd:COG4098 321 qlLIFVPTIELLEQLVALLQKLFPEERIAGVHAEDPERKEKV-QAFRDGEIPILVTTTILERGVTFPNVDvAVLGADHPV 399

                       330
                ....*....|....*..
gi 74181724 366 -NASAFVH---RCGRTA 378
Cdd:COG4098 400 fTEAALVQiagRVGRSA 416
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 311-392 5.81e-08

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 50.01  E-value: 5.81e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 311 KVKILCIHGKMkykRNKIFMEFrklqsGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARiGHGGSALVFL 390
Cdd:cd18785   5 KIIVFTNSIEH---AEEIASSL-----EILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGR-GGKDEGEVIL 75


                ..
gi 74181724 391 LP 392
Cdd:cd18785  76 FV 77
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 49-222 1.11e-07

DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350679 [Multi-domain]  Cd Length: 181  Bit Score: 52.26  E-value: 1.11e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  49 HMTPVQSATI-PLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKlkknqvgAIVITPTRELAiqiDEVLSHFTKHF 127
Cdd:cd17921   1 LLNPIQREALrALYLSGDSVLVSAPTSSGKTLIAELAILRALATSGGK-------AVYIAPTRALV---NQKEADLRERF 70

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 128 pQFSQILwIGGRNPGEDVERFKQHGGNIIVATPGRLEDMFRRKAEGLdlascVKSLDVLVLDEADRLLD----MGFEASI 203
Cdd:cd17921  71 -GPLGKN-VGLLTGDPSVNKLLLAEADILVATPEKLDLLLRNGGERL-----IQDVRLVVVDEAHLIGDgergVVLELLL 143

                       170
                ....*....|....*....
gi 74181724 204 NTILEFLPKQRRTGLfSAT 222
Cdd:cd17921 144 SRLLRINKNARFVGL-SAT 161
SF2_C_TRCF cd18810
C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair ...
 298-416 2.34e-07

C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair coupling factor (TrcF) dissociates transcription elongation complexes blocked at nonpairing lesions and mediates recruitment of DNA repair proteins. TrcF is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350197 [Multi-domain]  Cd Length: 151  Bit Score: 50.42  E-value: 2.34e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 298 VEYYGKALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCgr 376
Cdd:cd18810  38 IEKLATQLRQLVPEARIAIAHGQMtENELEEVMLEFAKGEYDILVCTTIIESGIDIPNANTIIIERADKFGLAQLYQL-- 115

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 74181724 377 TARIGHGGsalvfllpmEEAYINFLAINQKcPLQEMSLQR 416
Cdd:cd18810 116 RGRVGRSK---------ERAYAYFLYPDQK-KLTEDALKR 145
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
339-397 5.25e-07

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 52.81  E-value: 5.25e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 74181724 339 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIgHGGSA--LVFLLPMEEAY 397
Cdd:COG1111 414 VLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRK-REGRVvvLIAKGTRDEAY 473
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
 66-381 7.57e-07

CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I


Pssm-ID: 187770 [Multi-domain]  Cd Length: 353  Bit Score: 51.66  E-value: 7.57e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  66 DVAAEAVTGSGKT-LAFVIPILEILLRREEKLkknqvgaIVITPTRELAIQIDEVLSHFTKHFPQFSQILWIGGRNPGED 144
Cdd:cd09639   1 LLVIEAPTGYGKTeAALLWALHSLKSQKADRV-------IIALPTRATINAMYRRAKEAFGETGLYHSSILSSRIKEMGD 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 145 VERFKQ------HG------GNIIVATPGRLEDMFRRKAEGLDLASCVKSLDVLVLDEADrLLDMGFEASINTILEFLpk 212
Cdd:cd09639  74 SEEFEHlfplyiHSndtlflDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVH-FYDEYTLALILAVLEVL-- 150

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 213 qRRTG----LFSATQTqevENLVRAGLRN--------PVRISVKEkgvaasstQKTPSRLEnhymicKADEKFNQLVHFL 280
Cdd:cd09639 151 -KDNDvpilLMSATLP---KFLKEYAEKIgyveenepLDLKPNER--------APFIKIES------DKVGEISSLERLL 212

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 281 RSRQQE-KHLVFFSTCACVEYYGKALEALLKKVKILCIHGKMKY-----KRNKIFMEFRKLQSGILVCTDVMARGIDIpE 354
Cdd:cd09639 213 EFIKKGgSVAIIVNTVDRAQEFYQQLKEKGPEEEIMLIHSRFTEkdrakKEAELLLEFKKSEKFVIVATQVIEASLDI-S 291

                       330       340
                ....*....|....*....|....*..
gi 74181724 355 VNWVlqYDPPSNASAFVHRCGRTARIG 381
Cdd:cd09639 292 VDVM--ITELAPIDSLIQRLGRLHRYG 316
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 53-190 1.74e-06

DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box helicase, required for crossover formation and complete synapsis of homologous chromosomes during meiosis. HFM1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350781 [Multi-domain]  Cd Length: 206  Bit Score: 49.28  E-value: 1.74e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  53 VQSATIP-LFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLKKNqVGAIVITPTRELAIQidevlsHFTKHFPQFS 131
Cdd:cd18023   5 IQSEVFPdLLYSDKNFVVSAPTGSGKTVLFELAILRLLKERNPLPWGN-RKVVYIAPIKALCSE------KYDDWKEKFG 77

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 74181724 132 QI----LWIGGRNPGEDVERFKQhgGNIIVATPGRLEDMFRRKAEGLDLASCVKsldVLVLDE 190
Cdd:cd18023  78 PLglscAELTGDTEMDDTFEIQD--ADIILTTPEKWDSMTRRWRDNGNLVQLVA---LVLIDE 135
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 283-390 1.94e-06

C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 48.03  E-value: 1.94e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 283 RQQEKHLVFFSTCACVEYYGKALEALLKK----VKILCIHGKM-KYKRNKIfmEfRKLQSG---ILVCTDVMARGIDIPE 354
Cdd:cd18796  36 ERHKSTLVFTNTRSQAERLAQRLRELCPDrvppDFIALHHGSLsRELREEV--E-AALKRGdlkVVVATSSLELGIDIGD 112

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 74181724 355 VNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 390
Cdd:cd18796 113 VDLVIQIGSPKSVARLLQRLGRSGHRPGAASKGRLV 148
SF2_C_RecG_TRCF cd18792
C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family ...
 298-429 2.10e-06

C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family contains recombination factor RecG and transcription-repair coupling factor TrcF. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350179 [Multi-domain]  Cd Length: 160  Bit Score: 48.03  E-value: 2.10e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 298 VEYYGKALEALLKKVKILCIHGKMKY-KRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPpsnasafvHRCGR 376
Cdd:cd18792  47 IEALAEELKELVPEARVALLHGKMTEdEKEAVMLEFREGEYDILVSTTVIEVGIDVPNANTMIIEDA--------DRFGL 118

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 74181724 377 TA------RIGHGGsalvfllpmEEAYInFLAINQKCPLQEMSLQRntidllpkLRAMA 429
Cdd:cd18792 119 SQlhqlrgRVGRGK---------HQSYC-YLLYPDPKKLTETAKKR--------LRAIA 159
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 331-379 2.13e-06

C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex. It is required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. FANCM and Hef are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350188 [Multi-domain]  Cd Length: 143  Bit Score: 47.74  E-value: 2.13e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 74181724 331 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTAR 379
Cdd:cd18801  85 QFRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR 133
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 47-113 2.15e-06

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 51.04  E-value: 2.15e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 74181724   47 FPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRREEKLK-KNQVGAIVITPTRELA 113
Cdd:PRK13767  30 FGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGElEDKVYCLYVSPLRALN 97
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 271-379 2.45e-06

C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicer exists throughout eukaryotes, and a subset has an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer helicase domains are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 47.20  E-value: 2.45e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 271 EKFNQLVHFLRS-RQQEKH---LVFFSTCACVeyygKALEALLKKVKILCIHGKMKY--------KRNKIFMEFR----- 333
Cdd:cd18802   7 PKLQKLIEILREyFPKTPDfrgIIFVERRATA----VVLSRLLKEHPSTLAFIRCGFligrgnssQRKRSLMTQRkqket 82

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 74181724 334 --KLQSG---ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRtAR 379
Cdd:cd18802  83 ldKFRDGelnLLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-AR 132
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 64-233 4.15e-06

DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases from the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350680 [Multi-domain]  Cd Length: 166  Bit Score: 47.19  E-value: 4.15e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  64 NKDVAAEAVTGSGKTLAFVIPILEILLRREEKlkknQVGAIVITPTRELA--IQ--IDEVLSHFTkhfPQFSQILWIGGR 139
Cdd:cd17922   1 GRNVLIAAPTGSGKTEAAFLPALSSLADEPEK----GVQVLYISPLKALIndQErrLEEPLDEID---LEIPVAVRHGDT 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 140 NPGEDvERFKQHGGNIIVATPGRLEDMF-RRKAEGLdlascVKSLDVLVLDEADRLLD----MGFEASINTILEFL-PKQ 213
Cdd:cd17922  74 SQSEK-AKQLKNPPGILITTPESLELLLvNKKLREL-----FAGLRYVVVDEIHALLGskrgVQLELLLERLRKLTgRPL 147

                       170       180
                ....*....|....*....|
gi 74181724 214 RRTGLfSATqtqeVENLVRA 233
Cdd:cd17922 148 RRIGL-SAT----LGNLEEA 162
ResIII pfam04851
Type III restriction enzyme, res subunit;
73-222 5.10e-06

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 46.90  E-value: 5.10e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724    73 TGSGKTL-AFVIpileILLRREEKLKKNqvgAIVITPTRELAIQIdevLSHFTKHFP-QFSQILWIGGRNpgedvERFKQ 150
Cdd:pfam04851  32 TGSGKTLtAAKL----IARLFKKGPIKK---VLFLVPRKDLLEQA---LEEFKKFLPnYVEIGEIISGDK-----KDESV 96

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74181724   151 HGGNIIVATPGRLedmFRRKAEGLDLAScVKSLDVLVLDEADRLLDMGFEAsintILEFLPKQRRTGlFSAT 222
Cdd:pfam04851  97 DDNKIVVTTIQSL---YKALELASLELL-PDFFDVIIIDEAHRSGASSYRN----ILEYFKPAFLLG-LTAT 159
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 298-356 9.11e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 48.89  E-value: 9.11e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724   298 VEYYGKALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 356
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
33-113 1.74e-05

Lhr-like helicase [Replication, recombination and repair];


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 47.79  E-value: 1.74e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  33 PLHPRVLGALRElGFPHMTPVQSATIPLFMKNKDVAAEAVTGSGKTLA-FVIPILEILLRREEKLKKNQVGAIVITPTRE 111
Cdd:COG1201   9 LLHPAVRAWFAA-RFGAPTPPQREAWPAIAAGESTLLIAPTGSGKTLAaFLPALDELARRPRPGELPDGLRVLYISPLKA 87


                ..
gi 74181724 112 LA 113
Cdd:COG1201  88 LA 89
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
 296-391 2.41e-05

C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a critical role in recombination and DNA repair. RecG helps process Holliday junction intermediates to mature products by catalyzing branch migration. It is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350198 [Multi-domain]  Cd Length: 159  Bit Score: 45.03  E-value: 2.41e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 296 ACVEYYGKALEALLKKVKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPpsnasafvHRC 374
Cdd:cd18811  46 AAVAMYEYLKERFRPELNVGLLHGRLKSDeKDAVMAEFREGEVDILVSTTVIEVGVDVPNATVMVIEDA--------ERF 117

                        90       100
                ....*....|....*....|...
gi 74181724 375 GRTA------RIGHGGSALVFLL 391
Cdd:cd18811 118 GLSQlhqlrgRVGRGDHQSYCLL 140
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
267-376 2.01e-04

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 44.36  E-value: 2.01e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 267 CKADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTdV 345
Cdd:COG0514 212 KPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKVEELAEWLRE--AGIRAAAYHAGLDAEeREANQDRFLRDEVDVIVAT-I 288

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 74181724 346 ---MarGIDIPEVNWVLQYDPPSNASAF---VHRCGR 376
Cdd:COG0514 289 afgM--GIDKPDVRFVIHYDLPKSIEAYyqeIGRAGR 323
PRK13766 PRK13766
Hef nuclease; Provisional
 331-388 2.54e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 2.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 74181724  331 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDP-PSnASAFVHRCGRTARiGHGGSALV 388
Cdd:PRK13766 418 KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPS-EIRSIQRKGRTGR-QEEGRVVV 474
TrwB_TraG_TraD_VirD4 cd01127
TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are ...
 73-134 3.73e-04

TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion (T4S) systems, versatile bacterial secretion systems mediating transport of protein and/or DNA. They are present in gram-negative and gram-positive bacteria, as well as archaea. They form hexameric rings and belong to the RecA-like NTPases superfamily, which also includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases.


Pssm-ID: 410871 [Multi-domain]  Cd Length: 144  Bit Score: 41.05  E-value: 3.73e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74181724  73 TGSGKTLAFVIPILEILLRREeklkknqvGAIVITPTRELAIQIDEVLSHFTKHFPQFSQIL 134
Cdd:cd01127   8 TGSGKTTSIVIPLLDQAARGG--------SVIITDPKGELFLVIPDRDDSFAALRALFFNQL 61
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 52-222 5.94e-04

DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play an important role in RNA degradation, processing and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350786 [Multi-domain]  Cd Length: 177  Bit Score: 41.17  E-value: 5.94e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  52 PVQSATI-PLFMKNKDVAAEAVTGSGKTLAFVIPILEILLRReeklKKnqvgAIVITPTRELAiqiDEVLSHFTKHFPQF 130
Cdd:cd18028   4 PPQAEAVrAGLLKGENLLISIPTASGKTLIAEMAMVNTLLEG----GK----ALYLVPLRALA---SEKYEEFKKLEEIG 72

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 131 SQILWIGGRNPgEDVERFKQHggNIIVATPGRLEDMFRRKaegldlASCVKSLDVLVLDEADRLLDMG----FEASINTI 206
Cdd:cd18028  73 LKVGISTGDYD-EDDEWLGDY--DIIVATYEKFDSLLRHS------PSWLRDVGVVVVDEIHLISDEErgptLESIVARL 143

                       170
                ....*....|....*.
gi 74181724 207 LEFLPKQRRTGLfSAT 222
Cdd:cd18028 144 RRLNPNTQIIGL-SAT 158
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 71-222 6.87e-04

DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350684 [Multi-domain]  Cd Length: 146  Bit Score: 40.37  E-value: 6.87e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  71 AVTGSGKTLafvIPILEILLRREEKLkknqvgaIVITPTRELAIQIdevLSHFTKHFPQfSQIlwigGRNPGEDVERFKq 150
Cdd:cd17926  25 LPTGSGKTL---TALALIAYLKELRT-------LIVVPTDALLDQW---KERFEDFLGD-SSI----GLIGGGKKKDFD- 85

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74181724 151 hGGNIIVATPGRLedmFRRKAEGLDLAscvKSLDVLVLDEADRLLDMGFEAsintILEFLPKQRRTGlFSAT 222
Cdd:cd17926  86 -DANVVVATYQSL---SNLAEEEKDLF---DQFGLLIVDEAHHLPAKTFSE----ILKELNAKYRLG-LTAT 145
SF2_C_XPB cd18789
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ...
 272-391 2.48e-03

C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350176 [Multi-domain]  Cd Length: 153  Bit Score: 38.77  E-value: 2.48e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 272 KFNQLVHFL-RSRQQEKHLVFfstCACVEyygkALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARG 349
Cdd:cd18789  35 KLRALEELLkRHEQGDKIIVF---TDNVE----ALYRYAKRLLKPFITGETpQSEREEILQNFREGEYNTLVVSKVGDEG 107

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 74181724 350 IDIPEVNWVLQYDpPSNASA--FVHRCGRTARIGHGGSALVFLL 391
Cdd:cd18789 108 IDLPEANVAIQIS-GHGGSRrqEAQRLGRILRPKKGGGKNAFFY 150
DEXHc_dicer cd18034
DEXH-box helicase domain of endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded ...
 73-191 4.95e-03

DEXH-box helicase domain of endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicers exist throughout eukaryotes, and a subset have an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350792 [Multi-domain]  Cd Length: 200  Bit Score: 38.79  E-value: 4.95e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724  73 TGSGKTLAFVIPILEiLLRREEKLKKNQVGAIVITPTRELAIQIDEVLSHFTKHfpqFSQILWIGGRNPGEDVER----F 148
Cdd:cd18034  25 TGSGKTLIAVMLIKE-MGELNRKEKNPKKRAVFLVPTVPLVAQQAEAIRSHTDL---KVGEYSGEMGVDKWTKERwkeeL 100

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 74181724 149 KQHggNIIVATPGRLEDMFRRKAegLDLascvKSLDVLVLDEA 191
Cdd:cd18034 101 EKY--DVLVMTAQILLDALRHGF--LSL----SDINLLIFDEC 135
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 272-381 9.12e-03

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 36.69  E-value: 9.12e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74181724 272 KFNQLVHFLRSRQQEKH-LVFFSTCACV-EYYGKALEAllKKVKILCIHGKMK-YKRNKIFMEFRKLQSG--ILVCTDVM 346
Cdd:cd18793  12 KLEALLELLEELREPGEkVLIFSQFTDTlDILEEALRE--RGIKYLRLDGSTSsKERQKLVDRFNEDPDIrvFLLSTKAG 89

                        90       100       110
                ....*....|....*....|....*....|....*
gi 74181724 347 ARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 381
Cdd:cd18793  90 GVGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIG 124
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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