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Conserved domains on  [gi|28571809|ref|NP_524446|]
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pitchoune, isoform A [Drosophila melanogaster]

Protein Classification

DDX18/HAS1 family DEAD/DEAH box RNA helicase( domain architecture ID 13028608)

DDX18/HAS1 family DEAD/DEAH box containing ATP-dependent RNA helicase catalyzes the unwinding of RNA, such as fungal ATP-dependent RNA helicase HAS1 that is involved in 40S ribosomal subunit biogenesis

CATH:  3.40.50.300
EC:  3.6.4.13
Gene Ontology:  GO:0016887|GO:0003723|GO:0003724|GO:0005524
PubMed:  22922795|20206133|21779027|20225155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 198-395 2.35e-139

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: 405.59  E-value: 2.35e-139
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTGVIIISPTRELSMQTFG 277
Cdd:cd17942   1 TLKAIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLYKLKFKPRNGTGVIIISPTRELALQIYG 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEELKQ 357
Cdd:cd17942  81 VAKELLKYHSQTFGIVIGGANRKAEAEKLGKGVNILVATPGRLLDHLQNTKGFLYKNLQCLIIDEADRILEIGFEEEMRQ 160

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 28571809 358 IINLLPKRRQTMLFSATQTARIEALSKLALKSEPIYVG 395
Cdd:cd17942 161 IIKLLPKRRQTMLFSATQTRKVEDLARISLKKKPLYVG 198
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 408-537 3.99e-53

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: 178.86  E-value: 3.99e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 408 LEQGYIVCPSEKRLLVLF-TFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGI 486
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLlLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 28571809 487 LLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARGsGTSGHALLL 537
Cdd:cd18787  81 LVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRA-GRKGTAITF 130
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 570-627 1.05e-23

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: 94.39  E-value: 1.05e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28571809   570 QLQLEKLIAKNYFLNQSAKEAFKSYVRAYDSHQLKQIFNVNTLDLQAVAKSFGFLVPP 627
Cdd:pfam13959   1 QLQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAP 58
 
Name Accession Description Interval E-value
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 198-395 2.35e-139

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: 405.59  E-value: 2.35e-139
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTGVIIISPTRELSMQTFG 277
Cdd:cd17942   1 TLKAIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLYKLKFKPRNGTGVIIISPTRELALQIYG 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEELKQ 357
Cdd:cd17942  81 VAKELLKYHSQTFGIVIGGANRKAEAEKLGKGVNILVATPGRLLDHLQNTKGFLYKNLQCLIIDEADRILEIGFEEEMRQ 160

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 28571809 358 IINLLPKRRQTMLFSATQTARIEALSKLALKSEPIYVG 395
Cdd:cd17942 161 IIKLLPKRRQTMLFSATQTRKVEDLARISLKKKPLYVG 198
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
186-560 8.52e-116

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 353.68  E-value: 8.52e-116
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 186 SFASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPaveLINKLRFMPRNGTGVIII 265
Cdd:COG0513   3 SFADLG--LSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLP---LLQRLDPSRPRAPQALIL 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 266 SPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHL-QNSPDFlyKNLQCLIIDEVD 344
Cdd:COG0513  78 APTRELALQVAEELRKLAKYLGLRVATVYGGVSIGRQIRALKRGVDIVVATPGRLLDLIeRGALDL--SGVETLVLDEAD 155

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 345 RILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVGVhdNQDTATVDGLEQGYIVCPSEKRLLVL 424
Cdd:COG0513 156 RMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLK-NPVRIEV--APENATAETIEQRYYLVDKRDKLELL 232

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 425 FTFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDW 504
Cdd:COG0513 233 RRLLRDEDPERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSH 312

                       330       340       350       360       370
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 28571809 505 IVQYDPPDDPREYIHRVGRTARGsGTSGHALLLMRPEELGFLRYL-KAAKVPLNEFE 560
Cdd:COG0513 313 VINYDLPEDPEDYVHRIGRTGRA-GAEGTAISLVTPDERRLLRAIeKLIGQKIEEEE 368
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 186-544 5.02e-70

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 235.47  E-value: 5.02e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  186 SFASLkgAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPaveLINKL---RFmprnGTGV 262
Cdd:PRK11776   5 AFSTL--PLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLG---LLQKLdvkRF----RVQA 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  263 IIISPTRELSMQtfgVLKEL--MAHHHH-------TYGLVMGGsnrQVESekLGKGINILVATPGRLLDHLQ-NSPDFly 332
Cdd:PRK11776  76 LVLCPTRELADQ---VAKEIrrLARFIPnikvltlCGGVPMGP---QIDS--LEHGAHIIVGTPGRILDHLRkGTLDL-- 145

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  333 KNLQCLIIDEVDRILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVGVHDNQDTATVdglEQGY 412
Cdd:PRK11776 146 DALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQR-DPVEVKVESTHDLPAI---EQRF 221

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  413 IVCPSEKRLLVLFTFLKKNRKKKVMVFfssCMSVKYHHELFNYID---LPVTSIHGKQKQTKRTTTFFQFCNAESGILLC 489
Cdd:PRK11776 222 YEVSPDERLPALQRLLLHHQPESCVVF---CNTKKECQEVADALNaqgFSALALHGDLEQRDRDQVLVRFANRSCSVLVA 298

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 28571809  490 TDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARGsGTSGHALLLMRPEELG 544
Cdd:PRK11776 299 TDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRA-GSKGLALSLVAPEEMQ 352
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 211-382 1.24e-57

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: 192.07  E-value: 1.24e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809   211 TEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRfmprNGTGVIIISPTRELSMQTFGVLKELMAHHHHTY 290
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLD----NGPQALVLAPTRELAEQIYEELKKLGKGLGLKV 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809   291 GLVMGGSNRQVESEKLgKGINILVATPGRLLDHLQNSPDFlyKNLQCLIIDEVDRILEIGFEEELKQIINLLPKRRQTML 370
Cdd:pfam00270  77 ASLLGGDSRKEQLEKL-KGPDILVGTPGRLLDLLQERKLL--KNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILL 153

                         170
                  ....*....|..
gi 28571809   371 FSATQTARIEAL 382
Cdd:pfam00270 154 LSATLPRNLEDL 165
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 408-537 3.99e-53

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: 178.86  E-value: 3.99e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 408 LEQGYIVCPSEKRLLVLF-TFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGI 486
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLlLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 28571809 487 LLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARGsGTSGHALLL 537
Cdd:cd18787  81 LVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRA-GRKGTAITF 130
DEXDc smart00487
DEAD-like helicases superfamily;
202-410 1.10e-45

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 161.12  E-value: 1.10e-45
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809    202 IKEMGFTEMTEIQSKSLTPLLKG-RDLVGAAQTGSGKTLAFLIPAVELINKlrfmpRNGTGVIIISPTRELSMQTFGVLK 280
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKR-----GKGGRVLVLVPTRELAEQWAEELK 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809    281 ELMAHHHHTYGLVMGGSNRQVESEKLGKG-INILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQII 359
Cdd:smart00487  76 KLGPSLGLKVVGLYGGDSKREQLRKLESGkTDILVTTPGRLLDLLENDKLSL-SNVDLVILDEAHRLLDGGFGDQLEKLL 154

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|.
gi 28571809    360 NLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVgvhdNQDTATVDGLEQ 410
Cdd:smart00487 155 KLLPKNVQLLLLSATPPEEIENLLELFLN-DPVFI----DVGFTPLEPIEQ 200
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 419-526 1.68e-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: 1.68e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809   419 KRLLVLFTFLKKNRKKKVMVFFSSCMSVKYHHeLFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLD 498
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEAEL-LLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLD 79

                          90       100
                  ....*....|....*....|....*...
gi 28571809   499 IPQVDWIVQYDPPDDPREYIHRVGRTAR 526
Cdd:pfam00271  80 LPDVDLVINYDLPWNPASYIQRIGRAGR 107
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 570-627 1.05e-23

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: 94.39  E-value: 1.05e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28571809   570 QLQLEKLIAKNYFLNQSAKEAFKSYVRAYDSHQLKQIFNVNTLDLQAVAKSFGFLVPP 627
Cdd:pfam13959   1 QLQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAP 58
HELICc smart00490
helicase superfamily c-terminal domain;
447-526 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 28571809    447 KYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTAR 526
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
428-538 5.66e-08

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 56.28  E-value: 5.66e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 428 LKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQ--------KQTKRTTTFFQFCNAESGILLCTDVAARGLDI 499
Cdd:COG1111 348 LGTNPDSRIIVFTQYRDTAEMIVEFLSEPGIKAGRFVGQAskegdkglTQKEQIEILERFRAGEFNVLVATSVAEEGLDI 427

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 28571809 500 PQVDWIVQYDP-PDDPReYIHRVGRTARgsGTSGHALLLM 538
Cdd:COG1111 428 PEVDLVIFYEPvPSEIR-SIQRKGRTGR--KREGRVVVLI 464
PRK13766 PRK13766
Hef nuclease; Provisional
 467-529 3.04e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 3.04e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28571809  467 QKQTKRTTTffQFCNAESGILLCTDVAARGLDIPQVDWIVQYDP-PDDPReYIHRVGRTARGSG 529
Cdd:PRK13766 409 QKEQIEILD--KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPSEIR-SIQRKGRTGRQEE 469
 
Name Accession Description Interval E-value
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 198-395 2.35e-139

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: 405.59  E-value: 2.35e-139
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTGVIIISPTRELSMQTFG 277
Cdd:cd17942   1 TLKAIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLYKLKFKPRNGTGVIIISPTRELALQIYG 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEELKQ 357
Cdd:cd17942  81 VAKELLKYHSQTFGIVIGGANRKAEAEKLGKGVNILVATPGRLLDHLQNTKGFLYKNLQCLIIDEADRILEIGFEEEMRQ 160

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 28571809 358 IINLLPKRRQTMLFSATQTARIEALSKLALKSEPIYVG 395
Cdd:cd17942 161 IIKLLPKRRQTMLFSATQTRKVEDLARISLKKKPLYVG 198
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
186-560 8.52e-116

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 353.68  E-value: 8.52e-116
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 186 SFASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPaveLINKLRFMPRNGTGVIII 265
Cdd:COG0513   3 SFADLG--LSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLP---LLQRLDPSRPRAPQALIL 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 266 SPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHL-QNSPDFlyKNLQCLIIDEVD 344
Cdd:COG0513  78 APTRELALQVAEELRKLAKYLGLRVATVYGGVSIGRQIRALKRGVDIVVATPGRLLDLIeRGALDL--SGVETLVLDEAD 155

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 345 RILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVGVhdNQDTATVDGLEQGYIVCPSEKRLLVL 424
Cdd:COG0513 156 RMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLK-NPVRIEV--APENATAETIEQRYYLVDKRDKLELL 232

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 425 FTFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDW 504
Cdd:COG0513 233 RRLLRDEDPERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSH 312

                       330       340       350       360       370
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 28571809 505 IVQYDPPDDPREYIHRVGRTARGsGTSGHALLLMRPEELGFLRYL-KAAKVPLNEFE 560
Cdd:COG0513 313 VINYDLPEDPEDYVHRIGRTGRA-GAEGTAISLVTPDERRLLRAIeKLIGQKIEEEE 368
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 198-397 3.60e-88

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: 273.78  E-value: 3.60e-88
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTGVIIISPTRELSMQTFG 277
Cdd:cd17941   1 TLKGLKEAGFIKMTEIQRDSIPHALQGRDILGAAKTGSGKTLAFLVPLLEKLYRERWTPEDGLGALIISPTRELAMQIFE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGkGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEELKQ 357
Cdd:cd17941  81 VLRKVGKYHSFSAGLIIGGKDVKEEKERIN-RMNILVCTPGRLLQHMDETPGFDTSNLQMLVLDEADRILDMGFKETLDA 159

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 28571809 358 IINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVGVH 397
Cdd:cd17941 160 IVENLPKSRQTLLFSATQTKSVKDLARLSLK-NPEYISVH 198
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 198-394 1.43e-77

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: 246.20  E-value: 1.43e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTGVIIISPTRELSMQTFG 277
Cdd:cd00268   1 LLKALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILEKLLPEPKKKGRGPQALVLAPTRELAMQIAE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpDFLYKNLQCLIIDEVDRILEIGFEEELKQ 357
Cdd:cd00268  81 VARKLGKGTGLKVAAIYGGAPIKKQIEALKKGPDIVVGTPGRLLDLIERG-KLDLSNVKYLVLDEADRMLDMGFEEDVEK 159

                       170       180       190
                ....*....|....*....|....*....|....*..
gi 28571809 358 IINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYV 394
Cdd:cd00268 160 ILSALPKDRQTLLFSATLPEEVKELAKKFLK-NPVRI 195
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 186-544 5.02e-70

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 235.47  E-value: 5.02e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  186 SFASLkgAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPaveLINKL---RFmprnGTGV 262
Cdd:PRK11776   5 AFSTL--PLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLG---LLQKLdvkRF----RVQA 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  263 IIISPTRELSMQtfgVLKEL--MAHHHH-------TYGLVMGGsnrQVESekLGKGINILVATPGRLLDHLQ-NSPDFly 332
Cdd:PRK11776  76 LVLCPTRELADQ---VAKEIrrLARFIPnikvltlCGGVPMGP---QIDS--LEHGAHIIVGTPGRILDHLRkGTLDL-- 145

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  333 KNLQCLIIDEVDRILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVGVHDNQDTATVdglEQGY 412
Cdd:PRK11776 146 DALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQR-DPVEVKVESTHDLPAI---EQRF 221

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  413 IVCPSEKRLLVLFTFLKKNRKKKVMVFfssCMSVKYHHELFNYID---LPVTSIHGKQKQTKRTTTFFQFCNAESGILLC 489
Cdd:PRK11776 222 YEVSPDERLPALQRLLLHHQPESCVVF---CNTKKECQEVADALNaqgFSALALHGDLEQRDRDQVLVRFANRSCSVLVA 298

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 28571809  490 TDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARGsGTSGHALLLMRPEELG 544
Cdd:PRK11776 299 TDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRA-GSKGLALSLVAPEEMQ 352
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 199-394 4.93e-68

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: 220.97  E-value: 4.93e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVElinKLRFMPRN--GTGVIIISPTRELSMQTF 276
Cdd:cd17947   2 LRALSSLGFTKPTPIQAAAIPLALLGKDICASAVTGSGKTAAFLLPILE---RLLYRPKKkaATRVLVLVPTRELAMQCF 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 277 GVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEELK 356
Cdd:cd17947  79 SVLQQLAQFTDITFALAVGGLSLKAQEAALRARPDIVIATPGRLIDHLRNSPSFDLDSIEILVLDEADRMLEEGFADELK 158

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 28571809 357 QIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYV 394
Cdd:cd17947 159 EILRLCPRTRQTMLFSATMTDEVKDLAKLSLN-KPVRV 195
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 194-394 8.18e-64

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: 210.52  E-value: 8.18e-64
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 194 VSEATLRAIKEMGFTEMTEIQSKSLTPLL-KGRDLVGAAQTGSGKTLAFLIPAVE-LINKLRFMPRNGTGVIIISPTREL 271
Cdd:cd17964   1 LDPSLLKALTRMGFETMTPVQQKTLKPILsTGDDVLARAKTGTGKTLAFLLPAIQsLLNTKPAGRRSGVSALIISPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 272 SMQTFGVLKELmAHHHHTYG--LVMGGSNRQVESEKLGK-GINILVATPGRLLDHLQNSPDFLY-KNLQCLIIDEVDRIL 347
Cdd:cd17964  81 ALQIAAEAKKL-LQGLRKLRvqSAVGGTSRRAELNRLRRgRPDILVATPGRLIDHLENPGVAKAfTDLDYLVLDEADRLL 159

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 28571809 348 EIGFEEELKQIINLLPKR----RQTMLFSATQTARIEALSKLALKSEPIYV 394
Cdd:cd17964 160 DMGFRPDLEQILRHLPEKnadpRQTLLFSATVPDEVQQIARLTLKKDYKFI 210
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 205-395 1.41e-63

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: 209.75  E-value: 1.41e-63
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 205 MGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFM-PRN-GTGVIIISPTRELSMQTFGVLKEL 282
Cdd:cd17949   9 MGIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQRLLSLEPRvDRSdGTLALVLVPTRELALQIYEVLEKL 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 283 MAHHHH-TYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEELKQIINL 361
Cdd:cd17949  89 LKPFHWiVPGYLIGGEKRKSEKARLRKGVNILIATPGRLLDHLKNTQSFDVSNLRWLVLDEADRLLDMGFEKDITKILEL 168

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 28571809 362 L-------------PKRRQTMLFSATQTARIEALSKLALKSePIYVG 395
Cdd:cd17949 169 LddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKD-PVYID 214
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 198-394 3.40e-61

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: 203.19  E-value: 3.40e-61
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELI-NKLRFMPRNGTGVIIISPTRELSMQTF 276
Cdd:cd17960   1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILlKRKANLKKGQVGALIISPTRELATQIY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 277 GVLKELMAHHHHTY--GLVMGGSNRQVESEKL-GKGINILVATPGRLLDHLQNSPDFL-YKNLQCLIIDEVDRILEIGFE 352
Cdd:cd17960  81 EVLQSFLEHHLPKLkcQLLIGGTNVEEDVKKFkRNGPNILVGTPGRLEELLSRKADKVkVKSLEVLVLDEADRLLDLGFE 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 28571809 353 EELKQIINLLPKRRQTMLFSATQTARIEALSKLALKSePIYV 394
Cdd:cd17960 161 ADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRN-PVRV 201
PTZ00110 PTZ00110
helicase; Provisional
 199-542 3.79e-60

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 211.17  E-value: 3.79e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELIN-KLRFMPRNGTGVIIISPTRELSMQ--- 274
Cdd:PTZ00110 142 LKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINaQPLLRYGDGPIVLVLAPTRELAEQire 221

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  275 ---TFGVLKELmahhHHTygLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpdflYKNLQ---CLIIDEVDRILE 348
Cdd:PTZ00110 222 qcnKFGASSKI----RNT--VAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESN----VTNLRrvtYLVLDEADRMLD 291

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  349 IGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKSEPIYVGVhDNQDTATVDGLEQG-YIVCPSEKRLlVLFTF 427
Cdd:PTZ00110 292 MGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNV-GSLDLTACHNIKQEvFVVEEHEKRG-KLKML 369

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  428 LKK--NRKKKVMVFfssCMSVKYHHELFNYIDL---PVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQV 502
Cdd:PTZ00110 370 LQRimRDGDKILIF---VETKKGADFLTKELRLdgwPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDV 446

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|
gi 28571809  503 DWIVQYDPPDDPREYIHRVGRTARGsGTSGHALLLMRPEE 542
Cdd:PTZ00110 447 KYVINFDFPNQIEDYVHRIGRTGRA-GAKGASYTFLTPDK 485
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 211-382 1.24e-57

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: 192.07  E-value: 1.24e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809   211 TEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRfmprNGTGVIIISPTRELSMQTFGVLKELMAHHHHTY 290
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLD----NGPQALVLAPTRELAEQIYEELKKLGKGLGLKV 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809   291 GLVMGGSNRQVESEKLgKGINILVATPGRLLDHLQNSPDFlyKNLQCLIIDEVDRILEIGFEEELKQIINLLPKRRQTML 370
Cdd:pfam00270  77 ASLLGGDSRKEQLEKL-KGPDILVGTPGRLLDLLQERKLL--KNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILL 153

                         170
                  ....*....|..
gi 28571809   371 FSATQTARIEAL 382
Cdd:pfam00270 154 LSATLPRNLEDL 165
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 195-550 4.61e-57

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 199.78  E-value: 4.61e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  195 SEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELInkLRFmPRNGTG---VIIISPTREL 271
Cdd:PRK11192   9 DESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHL--LDF-PRRKSGpprILILTPTREL 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  272 SMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpDFLYKNLQCLIIDEVDRILEIGF 351
Cdd:PRK11192  86 AMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEE-NFDCRAVETLILDEADRMLDMGF 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  352 EEELKQIINLLPKRRQTMLFSATQTAriEALSKLA--LKSEPIYVGVhdNQDTATVDGLEQGYIVCPS-EKRLLVLFTFL 428
Cdd:PRK11192 165 AQDIETIAAETRWRKQTLLFSATLEG--DAVQDFAerLLNDPVEVEA--EPSRRERKKIHQWYYRADDlEHKTALLCHLL 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  429 KKNRKKKVMVFFSSCMSVkyhHELFNYI---DLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDWI 505
Cdd:PRK11192 241 KQPEVTRSIVFVRTRERV---HELAGWLrkaGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHV 317

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 28571809  506 VQYDPPDDPREYIHRVGRTARGsGTSGHALLLMRPEELGFL----RYLK 550
Cdd:PRK11192 318 INFDMPRSADTYLHRIGRTGRA-GRKGTAISLVEAHDHLLLgkieRYIE 365
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 187-535 8.42e-57

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 198.66  E-value: 8.42e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  187 FASLkgAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLI---------PAVEliNKLRFMPR 257
Cdd:PRK04837  10 FSDF--ALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTatfhyllshPAPE--DRKVNQPR 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  258 ngtgVIIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHL-QNSPDFlyKNLQ 336
Cdd:PRK04837  86 ----ALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAkQNHINL--GAIQ 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  337 CLIIDEVDRILEIGFeeeLKQIINLL-----PKRRQTMLFSATQTARIEalsKLALK--SEPIYVGVHDNQDTATVDGLE 409
Cdd:PRK04837 160 VVVLDEADRMFDLGF---IKDIRWLFrrmppANQRLNMLFSATLSYRVR---ELAFEhmNNPEYVEVEPEQKTGHRIKEE 233

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  410 QGYivcPS-EKRLLVLFTFLKKNRKKKVMVFFS---SCMSVKYH-----HElfnyidlpVTSIHGKQKQTKRTTTFFQFC 480
Cdd:PRK04837 234 LFY---PSnEEKMRLLQTLIEEEWPDRAIIFANtkhRCEEIWGHlaadgHR--------VGLLTGDVAQKKRLRILEEFT 302

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 28571809  481 NAESGILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARgSGTSGHAL 535
Cdd:PRK04837 303 RGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGR-AGASGHSI 356
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 186-547 1.18e-56

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 199.26  E-value: 1.18e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  186 SFASLkgAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMP--RNGTGVI 263
Cdd:PRK10590   2 SFDSL--GLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAkgRRPVRAL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  264 IISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLD--HlQNSPDFlyKNLQCLIID 341
Cdd:PRK10590  80 ILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDleH-QNAVKL--DQVEILVLD 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  342 EVDRILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKSePIYVGVHdNQDTATVDGLEQGYIVCPSEKRL 421
Cdd:PRK10590 157 EADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHN-PLEIEVA-RRNTASEQVTQHVHFVDKKRKRE 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  422 LVLFtFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQ 501
Cdd:PRK10590 235 LLSQ-MIGKGNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEE 313

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*.
gi 28571809  502 VDWIVQYDPPDDPREYIHRVGRTARGSGTsGHALLLMRPEELGFLR 547
Cdd:PRK10590 314 LPHVVNYELPNVPEDYVHRIGRTGRAAAT-GEALSLVCVDEHKLLR 358
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 186-388 1.47e-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: 182.90  E-value: 1.47e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 186 SFASLkgAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVE--LINKLRFMprngtgVI 263
Cdd:cd17954   1 TFKEL--GVCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQalLENPQRFF------AL 72

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 264 IISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEV 343
Cdd:cd17954  73 VLAPTRELAQQISEQFEALGSSIGLKSAVLVGGMDMMAQAIALAKKPHVIVATPGRLVDHLENTKGFSLKSLKFLVMDEA 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 28571809 344 DRILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALK 388
Cdd:cd17954 153 DRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLK 197
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 408-537 3.99e-53

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: 178.86  E-value: 3.99e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 408 LEQGYIVCPSEKRLLVLF-TFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGI 486
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLlLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 28571809 487 LLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARGsGTSGHALLL 537
Cdd:cd18787  81 LVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRA-GRKGTAITF 130
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 141-532 1.02e-51

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 186.27  E-value: 1.02e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  141 PVPAKKTKLLPNKSKAQNGKPAK-----DDEPFTVESSLAALDYRDSDdrsfaslkgaVSEATLRAIKEMGFTEMTEIQS 215
Cdd:PRK01297  46 PAAAAPRAEKPKKDKPRRERKPKpaslwKLEDFVVEPQEGKTRFHDFN----------LAPELMHAIHDLGFPYCTPIQA 115

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  216 KSLTPLLKGRDLVGAAQTGSGKTLAFLIPAV-ELIN----KLRFM--PRngtgVIIISPTRELSMQTFGVLKELMAHHHH 288
Cdd:PRK01297 116 QVLGYTLAGHDAIGRAQTGTGKTAAFLISIInQLLQtpppKERYMgePR----ALIIAPTRELVVQIAKDAAALTKYTGL 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  289 TYGLVMGGSNRQVESEKL-GKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQIINLLPKR-- 365
Cdd:PRK01297 192 NVMTFVGGMDFDKQLKQLeARFCDILVATPGRLLDFNQRGEVHL-DMVEVMVLDEADRMLDMGFIPQVRQIIRQTPRKee 270

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  366 RQTMLFSATQTARIEALSKLALkSEPIYVGVHDNQDTAtvDGLEQG-YIVCPSEKRLLvLFTFLKKNRKKKVMVFFSSCM 444
Cdd:PRK01297 271 RQTLLFSATFTDDVMNLAKQWT-TDPAIVEIEPENVAS--DTVEQHvYAVAGSDKYKL-LYNLVTQNPWERVMVFANRKD 346

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  445 SVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRT 524
Cdd:PRK01297 347 EVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRT 426


                 ....*...
gi 28571809  525 ARgSGTSG 532
Cdd:PRK01297 427 GR-AGASG 433
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 184-535 1.44e-51

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 187.85  E-value: 1.44e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  184 DRSFASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAV-ELINKLRFMPRNGTG- 261
Cdd:PRK04537   8 DLTFSSFD--LHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMnRLLSRPALADRKPEDp 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  262 -VIIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLII 340
Cdd:PRK04537  86 rALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVL 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  341 DEVDRILEIGFEEELKQIINLLPKR--RQTMLFSATQTARIEALSKLALkSEPIYVGVHdnQDTATVDGLEQGYIVCPSE 418
Cdd:PRK04537 166 DEADRMFDLGFIKDIRFLLRRMPERgtRQTLLFSATLSHRVLELAYEHM-NEPEKLVVE--TETITAARVRQRIYFPADE 242

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  419 KRLLVLFTFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLD 498
Cdd:PRK04537 243 EKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLH 322

                        330       340       350
                 ....*....|....*....|....*....|....*..
gi 28571809  499 IPQVDWIVQYDPPDDPREYIHRVGRTARgSGTSGHAL 535
Cdd:PRK04537 323 IDGVKYVYNYDLPFDAEDYVHRIGRTAR-LGEEGDAI 358
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 186-579 4.61e-50

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 184.67  E-value: 4.61e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  186 SFASLkgAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRngtgVIII 265
Cdd:PRK11634   7 TFADL--GLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQ----ILVL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  266 SPTRELSMQTFGVLKELMAHHHHTYGLVM-GGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVD 344
Cdd:PRK11634  81 APTRELAVQVAEAMTDFSKHMRGVNVVALyGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDL-SKLSGLVLDEAD 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  345 RILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVGVHDNqdTATVDGLEQGYIVCPSEKRLLVL 424
Cdd:PRK11634 160 EMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMK-EPQEVRIQSS--VTTRPDISQSYWTVWGMRKNEAL 236

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  425 FTFLKKNRKKKVMVFF---SSCMSVKYHHELFNYIDlpvTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQ 501
Cdd:PRK11634 237 VRFLEAEDFDAAIIFVrtkNATLEVAEALERNGYNS---AALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVER 313

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28571809  502 VDWIVQYDPPDDPREYIHRVGRTARgSGTSGHALLLMRPEELGFLRYL-KAAKVPLNEFEFSWQKIADiQLQLEKLIAK 579
Cdd:PRK11634 314 ISLVVNYDIPMDSESYVHRIGRTGR-AGRAGRALLFVENRERRLLRNIeRTMKLTIPEVELPNAELLG-KRRLEKFAAK 390
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 187-388 6.32e-50

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: 172.79  E-value: 6.32e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 187 FASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPaveLINKLRfmpRNGTGV--II 264
Cdd:cd17955   1 FEDLG--LSSWLVKQCASLGIKEPTPIQKLCIPEILAGRDVIGGAKTGSGKTAAFALP---ILQRLS---EDPYGIfaLV 72

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 265 ISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPD--FLYKNLQCLIIDE 342
Cdd:cd17955  73 LTPTRELAYQIAEQFRALGAPLGLRCCVIVGGMDMVKQALELSKRPHIVVATPGRLADHLRSSDDttKVLSRVKFLVLDE 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 28571809 343 VDRILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALK 388
Cdd:cd17955 153 ADRLLTGSFEDDLATILSALPPKRQTLLFSATLTDALKALKELFGN 198
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 186-394 2.34e-49

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: 171.33  E-value: 2.34e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 186 SFASLkgAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPaveLINKL-RFMPRNGTGVII 264
Cdd:cd17959   2 GFQSM--GLSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIP---MIEKLkAHSPTVGARALI 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 265 ISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpDFLYKNLQCLIIDEVD 344
Cdd:cd17959  77 LSPTRELALQTLKVTKELGKFTDLRTALLVGGDSLEEQFEALASNPDIIIATPGRLLHLLVEM-NLKLSSVEYVVFDEAD 155

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|
gi 28571809 345 RILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYV 394
Cdd:cd17959 156 RLFEMGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLN-EPVLI 204
PTZ00424 PTZ00424
helicase 45; Provisional
 186-547 8.03e-47

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 170.78  E-value: 8.03e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  186 SFASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINklrfMPRNGTGVIII 265
Cdd:PTZ00424  29 SFDALK--LNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLID----YDLNACQALIL 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  266 SPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLqNSPDFLYKNLQCLIIDEVDR 345
Cdd:PTZ00424 103 APTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMI-DKRHLRVDDLKLFILDEADE 181

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  346 ILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKSePIYVGVhdNQDTATVDGLEQGYIVCPSEK-RLLVL 424
Cdd:PTZ00424 182 MLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRD-PKRILV--KKDELTLEGIRQFYVAVEKEEwKFDTL 258

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  425 FTFLKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDW 504
Cdd:PTZ00424 259 CDLYETLTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSL 338

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 28571809  505 IVQYDPPDDPREYIHRVGRTARgSGTSGHALLLMRPEELGFLR 547
Cdd:PTZ00424 339 VINYDLPASPENYIHRIGRSGR-FGRKGVAINFVTPDDIEQLK 380
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 199-389 2.73e-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: 163.14  E-value: 2.73e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELI--NKLRFMPRNGTGVIIISPTRELSMQTF 276
Cdd:cd17961   6 LKAIAKLGWEKPTLIQSKAIPLALEGKDILARARTGSGKTAAYALPIIQKIlkAKAESGEEQGTRALILVPTRELAQQVS 85

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 277 GVLKELMAHHHHTYGLV--MGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEE 354
Cdd:cd17961  86 KVLEQLTAYCRKDVRVVnlSASSSDSVQRALLAEKPDIVVSTPARLLSHLESGSLLLLSTLKYLVIDEADLVLSYGYEED 165

                       170       180       190
                ....*....|....*....|....*....|....*
gi 28571809 355 LKQIINLLPKRRQTMLFSATQTARIEALSKLALKS 389
Cdd:cd17961 166 LKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHN 200
DEXDc smart00487
DEAD-like helicases superfamily;
202-410 1.10e-45

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 161.12  E-value: 1.10e-45
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809    202 IKEMGFTEMTEIQSKSLTPLLKG-RDLVGAAQTGSGKTLAFLIPAVELINKlrfmpRNGTGVIIISPTRELSMQTFGVLK 280
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKR-----GKGGRVLVLVPTRELAEQWAEELK 75

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809    281 ELMAHHHHTYGLVMGGSNRQVESEKLGKG-INILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQII 359
Cdd:smart00487  76 KLGPSLGLKVVGLYGGDSKREQLRKLESGkTDILVTTPGRLLDLLENDKLSL-SNVDLVILDEAHRLLDGGFGDQLEKLL 154

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|.
gi 28571809    360 NLLPKRRQTMLFSATQTARIEALSKLALKsEPIYVgvhdNQDTATVDGLEQ 410
Cdd:smart00487 155 KLLPKNVQLLLLSATPPEEIENLLELFLN-DPVFI----DVGFTPLEPIEQ 200
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 199-394 3.29e-43

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: 155.17  E-value: 3.29e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPR----NGTGVIIISPTRELSMQ 274
Cdd:cd17945   2 LRVIRKLGYKEPTPIQRQAIPIGLQNRDIIGIAETGSGKTAAFLIPLLVYISRLPPLDEetkdDGPYALILAPTRELAQQ 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 275 TFGVLKELMAHhhhtYGL----VMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpdFLYKNlQC--LIIDEVDRILE 348
Cdd:cd17945  82 IEEETQKFAKP----LGIrvvsIVGGHSIEEQAFSLRNGCEILIATPGRLLDCLERR--LLVLN-QCtyVVLDEADRMID 154

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28571809 349 IGFEEELKQIINLLP--------------------KRRQTMLFSATQTARIEALSKLALKsEPIYV 394
Cdd:cd17945 155 MGFEPQVTKILDAMPvsnkkpdteeaeklaasgkhRYRQTMMFTATMPPAVEKIAKGYLR-RPVVV 219
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 199-376 4.65e-43

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: 155.09  E-value: 4.65e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTP-LLKGRDLVGAAQTGSGKTLAFLIPAVE-LINKLRFMPRNG--TGVI--IISPTRELS 272
Cdd:cd17946   2 LRALADLGFSEPTPIQALALPAaIRDGKDVIGAAETGSGKTLAFGIPILErLLSQKSSNGVGGkqKPLRalILTPTRELA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 273 MQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFL--YKNLQCLIIDEVDRILEIG 350
Cdd:cd17946  82 VQVKDHLKAIAKYTNIKIASIVGGLAVQKQERLLKKRPEIVVATPGRLWELIQEGNEHLanLKSLRFLVLDEADRMLEKG 161

                       170       180       190
                ....*....|....*....|....*....|...
gi 28571809 351 FEEELKQIINLLP-------KRRQTMLFSATQT 376
Cdd:cd17946 162 HFAELEKILELLNkdragkkRKRQTFVFSATLT 194
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 199-394 7.07e-43

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: 153.29  E-value: 7.07e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPR-NGTGVIIISPTRELSMQTFG 277
Cdd:cd17966   2 MDELKRQGFTEPTAIQAQGWPMALSGRDMVGIAQTGSGKTLAFLLPAIVHINAQPPLERgDGPIVLVLAPTRELAQQIQQ 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQ 357
Cdd:cd17966  82 EANKFGGSSRLRNTCVYGGAPKGPQIRDLRRGVEICIATPGRLIDFLDQGKTNL-RRVTYLVLDEADRMLDMGFEPQIRK 160

                       170       180       190
                ....*....|....*....|....*....|....*..
gi 28571809 358 IINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYV 394
Cdd:cd17966 161 IVDQIRPDRQTLMWSATWPKEVRRLAEDFLK-DYIQV 196
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 199-396 8.27e-42

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: 150.43  E-value: 8.27e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKlrfmPRNGTGV--IIISPTRELSMQTF 276
Cdd:cd17957   2 LNNLEESGYREPTPIQMQAIPILLHGRDLLACAPTGSGKTLAFLIPILQKLGK----PRKKKGLraLILAPTRELASQIY 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 277 GVLKELMAhhhhTYGL---VMGGSNR--QVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGF 351
Cdd:cd17957  78 RELLKLSK----GTGLrivLLSKSLEakAKDGPKSITKYDILVSTPLRLVFLLKQGPIDL-SSVEYLVLDEADKLFEPGF 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 28571809 352 EEELKQIINLLP-KRRQTMLFSATQTARIEALSKLALKsEPIYVGV 396
Cdd:cd17957 153 REQTDEILAACTnPNLQRSLFSATIPSEVEELARSVMK-DPIRIIV 197
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 195-374 7.38e-41

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: 148.40  E-value: 7.38e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 195 SEATLRA-----IKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAV-ELINKLRFMPRNGTG-----VI 263
Cdd:cd17967   3 EEAGLRElllenIKRAGYTKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPIIsKLLEDGPPSVGRGRRkaypsAL 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 264 IISPTRELSMQTFGVLKELmahhhhTYG------LVMGGSNRQVESEKLGKGINILVATPGRLLDHLQ-NSPDFlyKNLQ 336
Cdd:cd17967  83 ILAPTRELAIQIYEEARKF------SYRsgvrsvVVYGGADVVHQQLQLLRGCDILVATPGRLVDFIErGRISL--SSIK 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 28571809 337 CLIIDEVDRILEIGFEEELKQIINL--LPKR--RQTMLFSAT 374
Cdd:cd17967 155 FLVLDEADRMLDMGFEPQIRKIVEHpdMPPKgeRQTLMFSAT 196
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 199-387 2.89e-38

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: 140.94  E-value: 2.89e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIP----AVELINKLRFMPRNGTGVIIISPTRELSMQ 274
Cdd:cd17951   2 LKGLKKKGIKKPTPIQMQGLPTILSGRDMIGIAFTGSGKTLVFTLPlimfALEQEKKLPFIKGEGPYGLIVCPSRELARQ 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 275 TFGVLKELMAHHHHT------YGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLqNSPDFLYKNLQCLIIDEVDRILE 348
Cdd:cd17951  82 THEVIEYYCKALQEGgypqlrCLLCIGGMSVKEQLEVIRKGVHIVVATPGRLMDML-NKKKINLDICRYLCLDEADRMID 160

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 28571809 349 IGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLAL 387
Cdd:cd17951 161 MGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSAL 199
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 199-394 4.59e-38

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: 139.86  E-value: 4.59e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPA-VELINKLRFMPRNGTGVIIISPTRELSMQTFG 277
Cdd:cd17952   2 LNAIRKQEYEQPTPIQAQALPVALSGRDMIGIAKTGSGKTAAFIWPMlVHIMDQRELEKGEGPIAVIVAPTRELAQQIYL 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPdflyKNLQ---CLIIDEVDRILEIGFEEE 354
Cdd:cd17952  82 EAKKFGKAYNLRVVAVYGGGSKWEQAKALQEGAEIVVATPGRLIDMVKKKA----TNLQrvtYLVLDEADRMFDMGFEYQ 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 28571809 355 LKQIINLLPKRRQTMLFSATQTARIEALSKLALkSEPIYV 394
Cdd:cd17952 158 VRSIVGHVRPDRQTLLFSATFKKKIEQLARDIL-SDPIRV 196
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 194-392 3.10e-37

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: 138.66  E-value: 3.10e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 194 VSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFmPRNGTGVI--IISPTREL 271
Cdd:cd17953  19 LSEKVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLPMFRHIKDQRP-VKPGEGPIglIMAPTREL 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 272 SMQTFGVLKELMAhhhhTYGL----VMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQ---CLIIDEVD 344
Cdd:cd17953  98 ALQIYVECKKFSK----ALGLrvvcVYGGSGISEQIAELKRGAEIVVCTPGRMIDILTANNGRV-TNLRrvtYVVLDEAD 172

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 28571809 345 RILEIGFEEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKSePI 392
Cdd:cd17953 173 RMFDMGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHK-PI 219
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 194-396 8.39e-37

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: 138.56  E-value: 8.39e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 194 VSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVElinklRFMPRNGTG----------VI 263
Cdd:cd18052  50 LCETLLKNIRKAGYEKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPVLT-----GMMKEGLTAssfsevqepqAL 124

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 264 IISPTRELSMQTFgvlKELMAHHHHT-------YGLV-MGGSNRQVEseklgKGINILVATPGRLLDHLQNSPDFLyKNL 335
Cdd:cd18052 125 IVAPTRELANQIF---LEARKFSYGTcirpvvvYGGVsVGHQIRQIE-----KGCHILVATPGRLLDFIGRGKISL-SKL 195

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28571809 336 QCLIIDEVDRILEIGFEEELKQIINLL---PK-RRQTMLFSATQTARIEALSKLALKSEPIYVGV 396
Cdd:cd18052 196 KYLILDEADRMLDMGFGPEIRKLVSEPgmpSKeDRQTLMFSATFPEEIQRLAAEFLKEDYLFLTV 260
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 199-394 3.50e-36

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: 134.90  E-value: 3.50e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAveLINkLRFMP-----RNGTGVIIISPTRELSM 273
Cdd:cd17958   2 MKEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPG--FIH-LDLQPipreqRNGPGVLVLTPTRELAL 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 274 QTFGvlkELMAHHHHTYGLV--MGGSNRQVESEKLGKGINILVATPGRLLDhLQNSPDFLYKNLQCLIIDEVDRILEIGF 351
Cdd:cd17958  79 QIEA---ECSKYSYKGLKSVcvYGGGNRNEQIEDLSKGVDIIIATPGRLND-LQMNNVINLKSITYLVLDEADRMLDMGF 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 28571809 352 EEELKQIINLLPKRRQTMLFSATQTARIEALSKLALKsEPIYV 394
Cdd:cd17958 155 EPQIRKILLDIRPDRQTIMTSATWPDGVRRLAQSYLK-DPMIV 196
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 195-392 4.21e-36

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: 134.76  E-value: 4.21e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 195 SEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINklrfMPRNGTGVIIISPTRELSMQ 274
Cdd:cd17939   5 SEDLLRGIYAYGFEKPSAIQQRAIVPIIKGRDVIAQAQSGTGKTATFSIGALQRID----TTVRETQALVLAPTRELAQQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 275 TFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNspDFLY-KNLQCLIIDEVDRILEIGFEE 353
Cdd:cd17939  81 IQKVVKALGDYMGVKVHACIGGTSVREDRRKLQYGPHIVVGTPGRVFDMLQR--RSLRtDKIKMFVLDEADEMLSRGFKD 158

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 28571809 354 ELKQIINLLPKRRQTMLFSATQTARIEALSKLALkSEPI 392
Cdd:cd17939 159 QIYDIFQFLPPETQVVLFSATMPHEVLEVTKKFM-RDPV 196
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 186-556 5.04e-36

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 142.62  E-value: 5.04e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  186 SFASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFM---PRNGTGV 262
Cdd:PLN00206 122 SFSSCG--LPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGhpsEQRNPLA 199

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  263 IIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpDFLYKNLQCLIIDE 342
Cdd:PLN00206 200 MVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKH-DIELDNVSVLVLDE 278

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  343 VDRILEIGFEEELKQIINLLPKRrQTMLFSATQTARIEALSKLALKsEPIYVGV-HDNQDTATVdglEQGYIVCPSEKRL 421
Cdd:PLN00206 279 VDCMLERGFRDQVMQIFQALSQP-QVLLFSATVSPEVEKFASSLAK-DIILISIgNPNRPNKAV---KQLAIWVETKQKK 353

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  422 LVLFTFLK-KNR-KKKVMVFFSSCMSVKYhheLFNYID----LPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAAR 495
Cdd:PLN00206 354 QKLFDILKsKQHfKPPAVVFVSSRLGADL---LANAITvvtgLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGR 430

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28571809  496 GLDIPQVDWIVQYDPPDDPREYIHRVGRTARgSGTSGHALLLMRPEELG----FLRYLKAAKVPL 556
Cdd:PLN00206 431 GVDLLRVRQVIIFDMPNTIKEYIHQIGRASR-MGEKGTAIVFVNEEDRNlfpeLVALLKSSGAAI 494
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 199-387 2.79e-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: 133.14  E-value: 2.79e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKG---------RDLVGAAQTGSGKTLAFLIPAVELINKlRFMPRngTGVIIISPTR 269
Cdd:cd17956   2 LKNLQNNGITSAFPVQAAVIPWLLPSskstppyrpGDLCVSAPTGSGKTLAYVLPIVQALSK-RVVPR--LRALIVVPTK 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 270 ELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKG--------INILVATPGRLLDHLQNSPDFLYKNLQCLIID 341
Cdd:cd17956  79 ELVQQVYKVFESLCKGTGLKVVSLSGQKSFKKEQKLLLVDtsgrylsrVDILVATPGRLVDHLNSTPGFTLKHLRFLVID 158

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28571809 342 EVDRILEIGFEEELKQIINLL--------------------PKRRQTMLFSATQTARIEALSKLAL 387
Cdd:cd17956 159 EADRLLNQSFQDWLETVMKALgrptapdlgsfgdanllersVRPLQKLLFSATLTRDPEKLSSLKL 224
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 199-374 4.36e-35

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: 131.65  E-value: 4.36e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINklrfMPRNGTGVIIISPTRELSMQTFGV 278
Cdd:cd17940  11 LMGIFEKGFEKPSPIQEESIPIALSGRDILARAKNGTGKTGAYLIPILEKID----PKKDVIQALILVPTRELALQTSQV 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 279 LKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQI 358
Cdd:cd17940  87 CKELGKHMGVKVMVTTGGTSLRDDIMRLYQTVHVLVGTPGRILDLAKKGVADL-SHCKTLVLDEADKLLSQDFQPIIEKI 165

                       170
                ....*....|....*.
gi 28571809 359 INLLPKRRQTMLFSAT 374
Cdd:cd17940 166 LNFLPKERQILLFSAT 181
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 199-388 2.12e-34

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: 130.90  E-value: 2.12e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPR-NGTGVIIISPTRELSMQTFG 277
Cdd:cd18049  36 MDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERgDGPICLVLAPTRELAQQVQQ 115

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQ 357
Cdd:cd18049 116 VAAEYGRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEAGKTNL-RRCTYLVLDEADRMLDMGFEPQIRK 194

                       170       180       190
                ....*....|....*....|....*....|.
gi 28571809 358 IINLLPKRRQTMLFSATQTARIEALSKLALK 388
Cdd:cd18049 195 IVDQIRPDRQTLMWSATWPKEVRQLAEDFLK 225
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 207-384 2.13e-32

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: 126.28  E-value: 2.13e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 207 FTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPR-NGTGVIIISPTRELSMQTFGVLKELMAH 285
Cdd:cd18050  82 FKEPTPIQCQGFPLALSGRDMVGIAQTGSGKTLAYLLPAIVHINHQPYLERgDGPICLVLAPTRELAQQVQQVADDYGKS 161

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 286 HHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQIINLLPKR 365
Cdd:cd18050 162 SRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEAGKTNL-RRCTYLVLDEADRMLDMGFEPQIRKIVDQIRPD 240

                       170
                ....*....|....*....
gi 28571809 366 RQTMLFSATQTARIEALSK 384
Cdd:cd18050 241 RQTLMWSATWPKEVRQLAE 259
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 202-394 1.39e-30

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: 118.81  E-value: 1.39e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 202 IKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAvelINKLRFMPRNGTGvIIISPTRELSMQTFGVLKE 281
Cdd:cd17962   5 LKKAGYEVPTPIQMQMIPVGLLGRDILASADTGSGKTAAFLLPV---IIRCLTEHRNPSA-LILTPTRELAVQIEDQAKE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 282 LM-AHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYkNLQCLIIDEVDRILEIGFEEELKQIIN 360
Cdd:cd17962  81 LMkGLPPMKTALLVGGLPLPPQLYRLQQGVKVIIATPGRLLDILKQSSVELD-NIKIVVVDEADTMLKMGFQQQVLDILE 159

                       170       180       190
                ....*....|....*....|....*....|....
gi 28571809 361 LLPKRRQTMLFSATQTARIEALSKLALKsEPIYV 394
Cdd:cd17962 160 NISHDHQTILVSATIPRGIEQLAGQLLQ-NPVRI 192
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 198-374 7.80e-30

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: 116.59  E-value: 7.80e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLrfmpRNGTGVIIISPTRELSMQTFG 277
Cdd:cd17943   1 VLEGLKAAGFQRPSPIQLAAIPLGLAGHDLIVQAKSGTGKTLVFVVIALESLDLE----RRHPQVLILAPTREIAVQIHD 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 278 VLKELMAH--HHHTyGLVMGGSNRQVESEKLgKGINILVATPGRLLdHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEEL 355
Cdd:cd17943  77 VFKKIGKKleGLKC-EVFIGGTPVKEDKKKL-KGCHIAVGTPGRIK-QLIELGALNVSHVRLFVLDEADKLMEGSFQKDV 153

                       170
                ....*....|....*....
gi 28571809 356 KQIINLLPKRRQTMLFSAT 374
Cdd:cd17943 154 NWIFSSLPKNKQVIAFSAT 172
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 200-374 8.86e-30

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: 116.65  E-value: 8.86e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 200 RAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINklrfmprngtgVIIISPTRELSMQTFGVL 279
Cdd:cd17938  12 KAVEELDWLLPTDIQAEAIPLILGGGDVLMAAETGSGKTGAFCLPVLQIVV-----------ALILEPSRELAEQTYNCI 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 280 KELMAHHHH---TYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELK 356
Cdd:cd17938  81 ENFKKYLDNpklRVALLIGGVKAREQLKRLESGVDIVVGTPGRLEDLIKTGKLDL-SSVRFFVLDEADRLLSQGNLETIN 159

                       170       180
                ....*....|....*....|....
gi 28571809 357 QIINLLPK------RRQTMLFSAT 374
Cdd:cd17938 160 RIYNRIPKitsdgkRLQVIVCSAT 183
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 198-394 9.65e-30

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: 116.49  E-value: 9.65e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 198 TLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTG--VIIISPTRELSMQT 275
Cdd:cd17944   1 TIKLLQARGVTYLFPIQVKTFHPVYSGKDLIAQARTGTGKTFSFAIPLIEKLQEDQQPRKRGRApkVLVLAPTRELANQV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 276 FGVLKELMahHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLYKnLQCLIIDEVDRILEIGFEEEL 355
Cdd:cd17944  81 TKDFKDIT--RKLSVACFYGGTPYQQQIFAIRNGIDILVGTPGRIKDHLQNGRLDLTK-LKHVVLDEVDQMLDMGFAEQV 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 28571809 356 KQIINLLPKRR-----QTMLFSATQTARIEALSKLALKSEPIYV 394
Cdd:cd17944 158 EEILSVSYKKDsednpQTLLFSATCPDWVYNVAKKYMKSQYEQV 201
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 186-384 1.01e-28

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: 115.14  E-value: 1.01e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 186 SFASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKL---RFMPRNGTG- 261
Cdd:cd18051  22 TFSDLD--LGEIIRNNIELARYTKPTPVQKHAIPIIKSKRDLMACAQTGSGKTAAFLLPILSQIYEQgpgESLPSESGYy 99

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 262 --------VIIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSPDFLyK 333
Cdd:cd18051 100 grrkqyplALVLAPTRELASQIYDEARKFAYRSRVRPCVVYGGADIGQQMRDLERGCHLLVATPGRLVDMLERGKIGL-D 178

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*
gi 28571809 334 NLQCLIIDEVDRILEIGFEEELKQII---NLLPK-RRQTMLFSATQTARIEALSK 384
Cdd:cd18051 179 YCKYLVLDEADRMLDMGFEPQIRRIVeqdTMPPTgERQTLMFSATFPKEIQMLAR 233
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 194-374 1.15e-28

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: 113.69  E-value: 1.15e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 194 VSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINklrfMPRNGTGVIIISPTRELSM 273
Cdd:cd18046   6 LKESLLRGIYAYGFEKPSAIQQRAIMPCIKGYDVIAQAQSGTGKTATFSISILQQID----TSLKATQALVLAPTRELAQ 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 274 QTFGV---LKELMAHHHHTyglVMGGSNRQVESEKLGKGINILVATPGRLLDHLqNSPDFLYKNLQCLIIDEVDRILEIG 350
Cdd:cd18046  82 QIQKVvmaLGDYMGIKCHA---CIGGTSVRDDAQKLQAGPHIVVGTPGRVFDMI-NRRYLRTDYIKMFVLDEADEMLSRG 157

                       170       180
                ....*....|....*....|....
gi 28571809 351 FEEELKQIINLLPKRRQTMLFSAT 374
Cdd:cd18046 158 FKDQIYDIFQKLPPDTQVVLLSAT 181
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 196-374 1.25e-27

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: 110.63  E-value: 1.25e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 196 EATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELIN-KLRfmprnGTGVIIISPTRELSMQ 274
Cdd:cd18045   8 EDLLRGIYAYGFEKPSAIQQRAIKPIIKGRDVIAQSQSGTGKTATFSISVLQCLDiQVR-----ETQALILSPTRELAVQ 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 275 TFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpDFLYKNLQCLIIDEVDRILEIGFEEE 354
Cdd:cd18045  83 IQKVLLALGDYMNVQCHACIGGTSVGDDIRKLDYGQHIVSGTPGRVFDMIRRR-SLRTRHIKMLVLDEADEMLNKGFKEQ 161

                       170       180
                ....*....|....*....|
gi 28571809 355 LKQIINLLPKRRQTMLFSAT 374
Cdd:cd18045 162 IYDVYRYLPPATQVVLVSAT 181
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 419-526 1.68e-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: 1.68e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809   419 KRLLVLFTFLKKNRKKKVMVFFSSCMSVKYHHeLFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLD 498
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEAEL-LLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLD 79

                          90       100
                  ....*....|....*....|....*...
gi 28571809   499 IPQVDWIVQYDPPDDPREYIHRVGRTAR 526
Cdd:pfam00271  80 LPDVDLVINYDLPWNPASYIQRIGRAGR 107
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 195-374 3.96e-26

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: 106.12  E-value: 3.96e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 195 SEATLRAIKEMGFTEMTEIQSKSLTPLLKG--RDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRngtgVIIISPTRELS 272
Cdd:cd17963   2 KPELLKGLYAMGFNKPSKIQETALPLILSDppENLIAQSQSGTGKTAAFVLAMLSRVDPTLKSPQ----ALCLAPTRELA 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 273 MQTFGVLKELMAHHHHTYGLVMGGSNRqveseKLGKGIN--ILVATPGRLLDHLQnSPDFLYKNLQCLIIDEVDRILEI- 349
Cdd:cd17963  78 RQIGEVVEKMGKFTGVKVALAVPGNDV-----PRGKKITaqIVIGTPGTVLDWLK-KRQLDLKKIKILVLDEADVMLDTq 151

                       170       180
                ....*....|....*....|....*
gi 28571809 350 GFEEELKQIINLLPKRRQTMLFSAT 374
Cdd:cd17963 152 GHGDQSIRIKRMLPRNCQILLFSAT 176
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 570-627 1.05e-23

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: 94.39  E-value: 1.05e-23
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28571809   570 QLQLEKLIAKNYFLNQSAKEAFKSYVRAYDSHQLKQIFNVNTLDLQAVAKSFGFLVPP 627
Cdd:pfam13959   1 QLQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAP 58
HELICc smart00490
helicase superfamily c-terminal domain;
447-526 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 28571809    447 KYHHELFNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTAR 526
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 199-394 1.82e-22

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: 95.87  E-value: 1.82e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKlrfmPRNGTGVIIISPTRELSMQT--- 275
Cdd:cd17950  14 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQLEP----VDGQVSVLVICHTRELAFQIsne 89

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 276 FGVLKELMahHHHTYGLVMGGSNRQVESEKL-GKGINILVATPGRLLDhLQNSPDFLYKNLQCLIIDEVDRILE-IGFEE 353
Cdd:cd17950  90 YERFSKYM--PNVKTAVFFGGVPIKKDIEVLkNKCPHIVVGTPGRILA-LVREKKLKLSHVKHFVLDECDKMLEqLDMRR 166

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 28571809 354 ELKQIINLLPKRRQTMLFSATQTARIEALSKLALKS-EPIYV 394
Cdd:cd17950 167 DVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDpLEIFV 208
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
223-537 2.19e-18

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 88.93  E-value: 2.19e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 223 KGRDLVGAAQTGSGKTLAFLIPAVELINKLRfmprngtgVIIISPTRELSMQTFGVLKELMAHHHHtyglvmGGSNRQVE 302
Cdd:COG1061  99 GGGRGLVVAPTGTGKTVLALALAAELLRGKR--------VLVLVPRRELLEQWAEELRRFLGDPLA------GGGKKDSD 164

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 303 SeklgkgiNILVATPGRL-----LDHLQNSPDFLyknlqclIIDEVDRIleigFEEELKQIINLLPKRRqTMLFSAT--- 374
Cdd:COG1061 165 A-------PITVATYQSLarrahLDELGDRFGLV-------IIDEAHHA----GAPSYRRILEAFPAAY-RLGLTATpfr 225

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 375 ---QTARIEALSKLA----LK--------SEPIYVGVHDN--QDTATVDGLEQGY---IVCPSEKRLLVLFTFLKKNRK- 433
Cdd:COG1061 226 sdgREILLFLFDGIVyeysLKeaiedgylAPPEYYGIRVDltDERAEYDALSERLreaLAADAERKDKILRELLREHPDd 305

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 434 KKVMVFfssCMSVKYHHEL---FNYIDLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDWIVQYDP 510
Cdd:COG1061 306 RKTLVF---CSSVDHAEALaelLNEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILLRP 382

                       330       340
                ....*....|....*....|....*..
gi 28571809 511 PDDPREYIHRVGRTARGSGTSGHALLL 537
Cdd:COG1061 383 TGSPREFIQRLGRGLRPAPGKEDALVY 409
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 199-386 2.78e-17

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: 81.64  E-value: 2.78e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTG---VIIISPTRELSMQT 275
Cdd:cd17948   2 VEILQRQGITKPTTVQKQGIPSILRGRNTLCAAETGSGKTLTYLLPIIQRLLRYKLLAEGPFNaprGLVITPSRELAEQI 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 276 FGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKGINILVATPGRLLDHLQNSpdfLYK--NLQCLIIDEVDRILEIGFEE 353
Cdd:cd17948  82 GSVAQSLTEGLGLKVKVITGGRTKRQIRNPHFEEVDILVATPGALSKLLTSR---IYSleQLRHLVLDEADTLLDDSFNE 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 28571809 354 EL-------------KQIINLLPKRRQTMLFSATQTARI-EALSKLA 386
Cdd:cd17948 159 KLshflrrfplasrrSENTDGLDPGTQLVLVSATMPSGVgEVLSKVI 205
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 230-374 4.24e-17

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: 78.60  E-value: 4.24e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 230 AAQTGSGKTLAFLIPAVELINKlrfmprNGTGVIIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKg 309
Cdd:cd00046   7 TAPTGSGKTLAALLAALLLLLK------KGKKVLVLVPTKALALQTAERLRELFGPGIRVAVLVGGSSAEEREKNKLGD- 79

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 28571809 310 INILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFE--EELKQIINLLPKRRQTMLFSAT 374
Cdd:cd00046  80 ADIIIATPDMLLNLLLREDRLFLKDLKLIIVDEAHALLIDSRGalILDLAVRKAGLKNAQVILLSAT 146
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 185-374 7.93e-17

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: 80.07  E-value: 7.93e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 185 RSFASLKgaVSEATLRAIKEMGFTEMTEIQSKSLTPLLKG--RDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRngtgV 262
Cdd:cd18048  18 KSFEELH--LKEELLRGIYAMGFNRPSKIQENALPMMLADppQNLIAQSQSGTGKTAAFVLAMLSRVDALKLYPQ----C 91

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 263 IIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEKLGKgiNILVATPGRLLDHLQNSPDFLYKNLQCLIIDE 342
Cdd:cd18048  92 LCLSPTFELALQTGKVVEEMGKFCVGIQVIYAIRGNRPGKGTDIEA--QIVIGTPGTVLDWCFKLRLIDVTNISVFVLDE 169

                       170       180       190
                ....*....|....*....|....*....|...
gi 28571809 343 VDRILEI-GFEEELKQIINLLPKRRQTMLFSAT 374
Cdd:cd18048 170 ADVMINVqGHSDHSVRVKRSMPKECQMLLFSAT 202
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 201-374 5.29e-15

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: 75.11  E-value: 5.29e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 201 AIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTG-------------VIIISP 267
Cdd:cd17965  38 AIKKLLKTLMRKVTKQTSNEEPKLEVFLLAAETGSGKTLAYLAPLLDYLKRQEQEPFEEAEeeyesakdtgrprSVILVP 117

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 268 TRELSMQTFGVLKELmaHHHHTYGLVMGGSN----RQVESEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEV 343
Cdd:cd17965 118 THELVEQVYSVLKKL--SHTVKLGIKTFSSGfgpsYQRLQLAFKGRIDILVTTPGKLASLAKSRPKIL-SRVTHLVVDEA 194

                       170       180       190
                ....*....|....*....|....*....|.
gi 28571809 344 DRILEIGFEEELKQIINLLPKRRQTMLFSAT 374
Cdd:cd17965 195 DTLFDRSFLQDTTSIIKRAPKLKHLILCSAT 225
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 199-374 1.81e-12

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: 67.05  E-value: 1.81e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 199 LRAIKEMGFTEMTEIQSKSLTPLLKG--RDLVGAAQTGSGKTLAFLIPAVELINKlrfmPRNGTGVIIISPTRELSMQTf 276
Cdd:cd18047  13 LQGVYAMGFNRPSKIQENALPLMLAEppQNLIAQSQSGTGKTAAFVLAMLSQVEP----ANKYPQCLCLSPTYELALQT- 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 277 GVLKELMAHHHHTYGLVMGgsnrqVESEKLGKGI----NILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDRILEI-GF 351
Cdd:cd18047  88 GKVIEQMGKFYPELKLAYA-----VRGNKLERGQkiseQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATqGH 162

                       170       180
                ....*....|....*....|...
gi 28571809 352 EEELKQIINLLPKRRQTMLFSAT 374
Cdd:cd18047 163 QDQSIRIQRMLPRNCQMLLFSAT 185
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 209-374 1.97e-12

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: 66.13  E-value: 1.97e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 209 EMTEIQSKSLTPL-LKGRDLVGAAQTGSGKTLAFLIPAVELINKlrfmprNGTGVIIISPTRELSMQTFGVLKELMAHHH 287
Cdd:cd17921   1 LLNPIQREALRALyLSGDSVLVSAPTSSGKTLIAELAILRALAT------SGGKAVYIAPTRALVNQKEADLRERFGPLG 74

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 288 HTYGLVMGG--SNRQVESEKlgkgiNILVATPGRLLDHLQNSPDFLYKNLQCLIIDEVDrilEIGFEEE---LKQIINLL 362
Cdd:cd17921  75 KNVGLLTGDpsVNKLLLAEA-----DILVATPEKLDLLLRNGGERLIQDVRLVVVDEAH---LIGDGERgvvLELLLSRL 146

                       170
                ....*....|....*
gi 28571809 363 PKRRQTMLF---SAT 374
Cdd:cd17921 147 LRINKNARFvglSAT 161
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
194-442 1.59e-10

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


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 64.15  E-value: 1.59e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 194 VSEATLRAIKEMGFTEMTEIQSKSLTP-LLKGRDLVGAAQTGSGKTL-AFLIpaveLINKLRfmpRNGTgVIIISPTREL 271
Cdd:COG1204   7 PLEKVIEFLKERGIEELYPPQAEALEAgLLEGKNLVVSAPTASGKTLiAELA----ILKALL---NGGK-ALYIVPLRAL 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 272 SMQTFGVLKELMAHHHHTYGLVMGgsNRQVESEKLGKGiNILVATPGRLLDHLQNSPDFLyKNLQCLIIDEV------DR 345
Cdd:COG1204  79 ASEKYREFKRDFEELGIKVGVSTG--DYDSDDEWLGRY-DILVATPEKLDSLLRNGPSWL-RDVDLVVVDEAhliddeSR 154

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 346 --ILEIgfeeeLKQIINLLPKRRQTMLFSATqtarIEALSKLA--LKSEPI---------YVGVHDNQDTATVDGLEQGY 412
Cdd:COG1204 155 gpTLEV-----LLARLRRLNPEAQIVALSAT----IGNAEEIAewLDAELVksdwrpvplNEGVLYDGVLRFDDGSRRSK 225

                       250       260       270
                ....*....|....*....|....*....|
gi 28571809 413 IVCPSekrlLVLFTfLKKNRkkKVMVFFSS 442
Cdd:COG1204 226 DPTLA----LALDL-LEEGG--QVLVFVSS 248
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 486-538 3.13e-09

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: 53.86  E-value: 3.13e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 28571809 486 ILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARGSGTSGHALLLM 538
Cdd:cd18785  25 ILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKDEGEVILFV 77
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 466-538 1.56e-08

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: 53.90  E-value: 1.56e-08
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28571809 466 KQKQTKRTTTffQFCNAESGILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRTARGSGtsGHALLLM 538
Cdd:cd18801  75 SQKEQKEVIE--QFRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGRKRQ--GRVVVLL 143
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
428-538 5.66e-08

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 56.28  E-value: 5.66e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 428 LKKNRKKKVMVFFSSCMSVKYHHELFNYIDLPVTSIHGKQ--------KQTKRTTTFFQFCNAESGILLCTDVAARGLDI 499
Cdd:COG1111 348 LGTNPDSRIIVFTQYRDTAEMIVEFLSEPGIKAGRFVGQAskegdkglTQKEQIEILERFRAGEFNVLVATSVAEEGLDI 427

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 28571809 500 PQVDWIVQYDP-PDDPReYIHRVGRTARgsGTSGHALLLM 538
Cdd:COG1111 428 PEVDLVIFYEPvPSEIR-SIQRKGRTGR--KREGRVVVLI 464
DEXHc_RecG cd17918
DEXH/Q-box helicase domain of DEAD-like helicase RecG family proteins; The DEAD-like helicase ...
 225-382 1.19e-07

DEXH/Q-box helicase domain of DEAD-like helicase RecG family proteins; The DEAD-like helicase RecG family is part of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350676 [Multi-domain]  Cd Length: 180  Bit Score: 52.03  E-value: 1.19e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 225 RDLVGAAQTGSGKTLAFLIPAVELINklrfmprNGTGVIIISPTRELSMQTFGVLKELMAHHHhtYGLVMGGSNRQVESe 304
Cdd:cd17918  37 MDRLLSGDVGSGKTLVALGAALLAYK-------NGKQVAILVPTEILAHQHYEEARKFLPFIN--VELVTGGTKAQILS- 106

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 28571809 305 klgkGINILVATPGRLldHLqnspDFLYKNLQCLIIDEVDRileigFEEELKQIINLLpKRRQTMLFSATQTARIEAL 382
Cdd:cd17918 107 ----GISLLVGTHALL--HL----DVKFKNLDLVIVDEQHR-----FGVAQREALYNL-GATHFLEATATPIPRTLAL 168
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 214-342 5.06e-07

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: 50.28  E-value: 5.06e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 214 QSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVElinklRFMPRNGTGVIIISPTRELSMQTFGVLKELMA--HHHHTYG 291
Cdd:cd17923   5 QAEAIEAARAGRSVVVTTGTASGKSLCYQLPILE-----ALLRDPGSRALYLYPTKALAQDQLRSLRELLEqlGLGIRVA 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 28571809 292 LVMGGSNRQVESEKLGKGINILVATPGRL----LDHLQNSPDFLyKNLQCLIIDE 342
Cdd:cd17923  80 TYDGDTPREERRAIIRNPPRILLTNPDMLhyalLPHHDRWARFL-RNLRYVVLDE 133
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 224-343 5.07e-07

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: 49.89  E-value: 5.07e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 224 GRDLVGAAQTGSGKTLAFLIPAVELINKLrfmPRNGTGVIIISPTRELSMQTFGVLKELMAHHHH--TYGLVMGGSNRQV 301
Cdd:cd17922   1 GRNVLIAAPTGSGKTEAAFLPALSSLADE---PEKGVQVLYISPLKALINDQERRLEEPLDEIDLeiPVAVRHGDTSQSE 77

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 28571809 302 ESEKLGKGINILVATPgRLLDHLQNSPDF--LYKNLQCLIIDEV 343
Cdd:cd17922  78 KAKQLKNPPGILITTP-ESLELLLVNKKLreLFAGLRYVVVDEI 120
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
 196-398 5.60e-07

DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box helicase superfamily is a family of highly conserved DNA repair helicases. This domain contains the ATP-binding region.


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 50.61  E-value: 5.60e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 196 EATLRAIkeMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELinklrfmprNGTgVIIISPTREL---- 271
Cdd:cd17920   1 EQILKEV--FGYDEFRPGQLEAINAVLAGRDVLVVMPTGGGKSLCYQLPALLL---------DGV-TLVVSPLISLmqdq 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 272 --SMQTFGV-LKELMAHhhhtyglvMGGSNRQVESEKLGKG-INILVATPGRL-----LDHLQNSPDFlyKNLQCLIIDE 342
Cdd:cd17920  69 vdRLQQLGIrAAALNST--------LSPEEKREVLLRIKNGqYKLLYVTPERLlspdfLELLQRLPER--KRLALIVVDE 138

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28571809 343 VDRILEIG--FEEELKQIINLLPKRR--QTMLFSATQTARIEA--LSKLALKSEPIYVGVHD 398
Cdd:cd17920 139 AHCVSQWGhdFRPDYLRLGRLRRALPgvPILALTATATPEVREdiLKRLGLRNPVIFRASFD 200
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 186-272 7.55e-07

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: 52.53  E-value: 7.55e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 186 SFASLKGAVSEATLRAIKEMGFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVELInkLRfmPRNGTgVIII 265
Cdd:COG1205  33 RYAPWPDWLPPELRAALKKRGIERLYSHQAEAIEAARAGKNVVIATPTASGKSLAYLLPVLEAL--LE--DPGAT-ALYL 107


                ....*..
gi 28571809 266 SPTRELS 272
Cdd:COG1205 108 YPTKALA 114
Cas3 COG1203
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; ...
 231-344 9.45e-07

CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; CRISPR-Cas type I system-associated endonuclease/helicase Cas3 is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 440816 [Multi-domain]  Cd Length: 535  Bit Score: 52.01  E-value: 9.45e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 231 AQTGSGKTLAFLIPAVELINKlrfmpRNGTGVIIISPTRELSMQTFGVLKELMAH----HHHTYGLVMGGSNRQVESEK- 305
Cdd:COG1203 154 APTGGGKTEAALLFALRLAAK-----HGGRRIIYALPFTSIINQTYDRLRDLFGEdvllHHSLADLDLLEEEEEYESEAr 228

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 28571809 306 ----LGKGIN--ILVATPGRLLDHL-QNSPDFLYK--NLQ--CLIIDEVD 344
Cdd:COG1203 229 wlklLKELWDapVVVTTIDQLFESLfSNRKGQERRlhNLAnsVIILDEVQ 278
PRK00254 PRK00254
ski2-like helicase; Provisional
 194-374 1.62e-06

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 51.36  E-value: 1.62e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  194 VSEATLRAIKEMGFTEMTEIQSKSLTP-LLKGRDLVGAAQTGSGKTlafLIPAVELINKLRfmpRNGTGVIIISPTRELS 272
Cdd:PRK00254   8 VDERIKRVLKERGIEELYPPQAEALKSgVLEGKNLVLAIPTASGKT---LVAEIVMVNKLL---REGGKAVYLVPLKALA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809  273 MQTFGVLKELmahhhHTYGL--VMGGSNRQVESEKLGKgINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIG 350
Cdd:PRK00254  82 EEKYREFKDW-----EKLGLrvAMTTGDYDSTDEWLGK-YDIIIATAEKFDSLLRHGSSWI-KDVKLVVADEIHLIGSYD 154

                        170       180
                 ....*....|....*....|....
gi 28571809  351 FEEELKQIINLLPKRRQTMLFSAT 374
Cdd:PRK00254 155 RGATLEMILTHMLGRAQILGLSAT 178
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 233-374 1.63e-06

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: 48.07  E-value: 1.63e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 233 TGSGKTLAflipAVELINKLRFMPrngtgVIIISPTRELSMQTFGVLKELMahHHHTYGLVMGGSNrqveseKLGKGINI 312
Cdd:cd17926  27 TGSGKTLT----ALALIAYLKELR-----TLIVVPTDALLDQWKERFEDFL--GDSSIGLIGGGKK------KDFDDANV 89

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28571809 313 LVATPgRLLDHLQNSPDFLYKNLQCLIIDEVDRILEIGFEEELKqiiNLLPKRRqtMLFSAT 374
Cdd:cd17926  90 VVATY-QSLSNLAEEEKDLFDQFGLLIVDEAHHLPAKTFSEILK---ELNAKYR--LGLTAT 145
DEXHc_cas3 cd17930
DEXH/Q-box helicase domain of Cas3; CRISPR-associated (Cas) 3 is a nuclease-helicase ...
 231-343 4.08e-06

DEXH/Q-box helicase domain of Cas3; CRISPR-associated (Cas) 3 is a nuclease-helicase responsible for degradation of dsDNA. The two enzymatic units of Cas3, a histidine-aspartate (HD) nuclease and a Superfamily 2 (SF2) helicase, may be expressed from separate genes as Cas3' (SF2 helicase) and Cas3'' (HD nuclease) or may be fused as a single HD-SF2 polypeptide. The nucleolytic activity of most Cas3 enzymes is transition metal ion-dependent. Cas3 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: 350688 [Multi-domain]  Cd Length: 186  Bit Score: 47.67  E-value: 4.08e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 231 AQTGSGKTLAFLIPAvelinkLRFMPRNG-TGVIIISPTRELSMQTFGVLKELMAH---------HHHTYGLVM------ 294
Cdd:cd17930   8 APTGSGKTEAALLWA------LKLAARGGkRRIIYALPTRATINQMYERIREILGRlddedkvllLHSKAALELlesdee 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 28571809 295 --GGSNRQVESEKLGKGI---NILVATPGRLLDHLQNSPDFLYK--NLQ--CLIIDEV 343
Cdd:cd17930  82 pdDDPVEAVDWALLLKRSwlaPIVVTTIDQLLESLLKYKHFERRlhGLAnsVVVLDEV 139
DEXHc_dicer cd18034
DEXH-box helicase domain of endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded ...
 233-343 1.36e-05

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: 46.49  E-value: 1.36e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 233 TGSGKTLaflIpAVELINKL----RFMPRNGTGVIIISPTRELSMQTFGVLKElmahhhHTYGLVM--------GGSNRQ 300
Cdd:cd18034  25 TGSGKTL---I-AVMLIKEMgelnRKEKNPKKRAVFLVPTVPLVAQQAEAIRS------HTDLKVGeysgemgvDKWTKE 94

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 28571809 301 VESEKLGKgINILVATPGRLLDHLQNSpdFL-YKNLQCLIIDEV 343
Cdd:cd18034  95 RWKEELEK-YDVLVMTAQILLDALRHG--FLsLSDINLLIFDEC 135
DEXHc_RIG-I cd17927
DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I ...
 220-342 1.42e-05

DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I family include FANCM, dicer, Hef, and the RIG-I-like receptors. Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex 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. Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). Hef (helicase-associated endonuclease fork-structure) is involved in stalled replication fork repair. RIG-I-like receptors (RLRs) sense cytoplasmic viral RNA and comprises RIG-I, RLR-2/MDA5 (melanoma differentiation-associated protein 5) and RLR-3/LGP2 (laboratory of genetics and physiology 2). The RIG-I family is 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: 350685 [Multi-domain]  Cd Length: 201  Bit Score: 46.27  E-value: 1.42e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 220 PLLKGRDLVGAAQTGSGKTLAFLIPAVELINKLRfmPRNGTGVIIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNR 299
Cdd:cd17927  13 PALKGKNTIICLPTGSGKTFVAVLICEHHLKKFP--AGRKGKVVFLANKVPLVEQQKEVFRKHFERPGYKVTGLSGDTSE 90

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 28571809 300 QVESEKLGKGINILVATPGRLLDHLQNSPDFLYKNLQCLIIDE 342
Cdd:cd17927  91 NVSVEQIVESSDVIIVTPQILVNDLKSGTIVSLSDFSLLVFDE 133
DEXDc_FANCM cd18033
DEAH-box helicase domain of FANCM; Fanconi anemia group M (FANCM) protein is a DNA-dependent ...
 233-345 4.14e-05

DEAH-box helicase domain of FANCM; 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. In complex with CENPS and CENPX, it binds double-stranded DNA (dsDNA), fork-structured DNA (fsDNA), and Holliday junction substrates. Its ATP-dependent DNA branch migration activity can process branched DNA structures such as a movable replication fork. This activity is strongly stimulated in the presence of CENPS and CENPX. In complex with FAAP24, it efficiently binds to single-strand DNA (ssDNA), splayed-arm DNA, and 3'-flap substrates. In vitro, on its own, it strongly binds ssDNA oligomers and weakly fsDNA, but does not bind to dsDNA. FANCM 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: 350791 [Multi-domain]  Cd Length: 182  Bit Score: 44.62  E-value: 4.14e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 233 TGSGKTLaflIPAVELINKLRFMPrngTGVII-ISPTRELSMQ-------TFGVLKELMAhhhhtyglVMGGSNRQVESE 304
Cdd:cd18033  25 TGLGKTF---IAAVVMLNYYRWFP---KGKIVfMAPTKPLVSQqieacykITGIPSSQTA--------ELTGSVPPTKRA 90

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 28571809 305 KLGKGINILVATPGRLLDHLqNSPDFLYKNLQCLIIDEVDR 345
Cdd:cd18033  91 ELWASKRVFFLTPQTLENDL-KEGDCDPKSIVCLVIDEAHR 130
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
207-272 4.18e-05

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


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 47.02  E-value: 4.18e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28571809 207 FTEMTEIQSKSLTPLLKGRD-LVgAAQTGSGKTLA-FLIPAVELINK-LRFMPRNGTGVIIISPTRELS 272
Cdd:COG1201  22 FGAPTPPQREAWPAIAAGEStLL-IAPTGSGKTLAaFLPALDELARRpRPGELPDGLRVLYISPLKALA 89
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 221-383 6.32e-05

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: 44.25  E-value: 6.32e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 221 LLKGRDLVGAAQTGSGKTlafLIPAVELINKLrfmpRNGTGVIIISPTRELSMQTFGVLKELmahhhHTYGLVMG---GS 297
Cdd:cd18028  14 LLKGENLLISIPTASGKT---LIAEMAMVNTL----LEGGKALYLVPLRALASEKYEEFKKL-----EEIGLKVGistGD 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 298 NRQvESEKLGKgINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRIleigFEEELKQIINLLPKRRQTMLFSatqtA 377
Cdd:cd18028  82 YDE-DDEWLGD-YDIIVATYEKFDSLLRHSPSWL-RDVGVVVVDEIHLI----SDEERGPTLESIVARLRRLNPN----T 150


                ....*.
gi 28571809 378 RIEALS 383
Cdd:cd18028 151 QIIGLS 156
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 486-537 9.13e-05

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: 42.96  E-value: 9.13e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 28571809 486 ILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIHRVGRtARGSGtSGHALLL 537
Cdd:cd18802  93 LLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-ARAPN-SKYILMV 142
PRK13766 PRK13766
Hef nuclease; Provisional
 467-529 3.04e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 3.04e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28571809  467 QKQTKRTTTffQFCNAESGILLCTDVAARGLDIPQVDWIVQYDP-PDDPReYIHRVGRTARGSG 529
Cdd:PRK13766 409 QKEQIEILD--KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPSEIR-SIQRKGRTGRQEE 469
ResIII pfam04851
Type III restriction enzyme, res subunit;
233-374 4.58e-04

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 41.50  E-value: 4.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809   233 TGSGKTL--AFLIpavELINKLRFMPRngtgVIIISPTRELSMQTFGVLKELMAHHHHTYGLVMGGSNRQVESEklgkgI 310
Cdd:pfam04851  32 TGSGKTLtaAKLI---ARLFKKGPIKK----VLFLVPRKDLLEQALEEFKKFLPNYVEIGEIISGDKKDESVDD-----N 99

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28571809   311 NILVATPGRLLDHLQNSP-DFLYKNLQCLIIDEVDRILEIGFeeelKQIINLLPKRRQtMLFSAT 374
Cdd:pfam04851 100 KIVVTTIQSLYKALELASlELLPDFFDVIIIDEAHRSGASSY----RNILEYFKPAFL-LGLTAT 159
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 211-276 6.28e-04

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: 41.57  E-value: 6.28e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 28571809 211 TEIQSKSLTPLLKG-RDLVGAAQTGSGKTLAFLIPAVELINKLRFMPRNGTGVIIISPTRELSMQTF 276
Cdd:cd18023   3 NRIQSEVFPDLLYSdKNFVVSAPTGSGKTVLFELAILRLLKERNPLPWGNRKVVYIAPIKALCSEKY 69
DEXHc_SKIV2L cd18027
DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also ...
 209-394 9.15e-04

DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also called SKI2 or DHX13) plays a role in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. SKIV2L 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: 350785 [Multi-domain]  Cd Length: 179  Bit Score: 40.71  E-value: 9.15e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 209 EMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIpAVELINKlrfmprNGTGVIIISPTRELSMQTFGVLKELMAHhhh 288
Cdd:cd18027   8 ELDVFQKQAILHLEAGDSVFVAAHTSAGKTVVAEY-AIALAQK------HMTRTIYTSPIKALSNQKFRDFKNTFGD--- 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 289 tYGLVMGgsnrqveSEKLGKGINILVATPGRLLDHLQNSPDFLyKNLQCLIIDEVDRILEIGFEEELKQIINLLPKRRQT 368
Cdd:cd18027  78 -VGLITG-------DVQLNPEASCLIMTTEILRSMLYNGSDVI-RDLEWVIFDEVHYINDAERGVVWEEVLIMLPDHVSI 148

                       170       180
                ....*....|....*....|....*..
gi 28571809 369 MLFSATQTARIEALSKLA-LKSEPIYV 394
Cdd:cd18027 149 ILLSATVPNTVEFADWIGrIKKKNIYV 175
DEXHc_RecQ4-like cd18018
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ...
 206-398 1.75e-03

DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) is part of the RecQ family of highly conserved DNA repair helicases that is part of 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. Mutations cause Rothmund-Thomson/RAPADILINO/Baller-Gerold syndrome.


Pssm-ID: 350776 [Multi-domain]  Cd Length: 201  Bit Score: 40.32  E-value: 1.75e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 206 GFTEMTEIQSKSLTPLLKGRDLVGAAQTGSGKTLAFLIPAVelinklrFMPRNGTGV-IIISPTRELsM--QTFGV---L 279
Cdd:cd18018   9 GHPSFRPGQEEAIARLLSGRSTLVVLPTGAGKSLCYQLPAL-------LLRRRGPGLtLVVSPLIAL-MkdQVDALpraI 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 280 KELMAHHHHTyglvmgGSNRQVESEKLGKG-INILVATPGRLldhlqNSPDFLY-----KNLQCLIIDEVDRILEIGFE- 352
Cdd:cd18018  81 KAAALNSSLT------REERRRILEKLRAGeVKILYVSPERL-----VNESFREllrqtPPISLLVVDEAHCISEWSHNf 149

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 28571809 353 ----EELKQIINLLPKRRQTMLFSATQTARI--EALSKLALKSEPIYVGVHD 398
Cdd:cd18018 150 rpdyLRLCRVLRELLGAPPVLALTATATKRVveDIASHLGIPESGVVRGPLY 201
VirD4 COG3505
Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, ...
 231-282 1.88e-03

Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442728 [Multi-domain]  Cd Length: 402  Bit Score: 41.12  E-value: 1.88e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 28571809 231 AQTGSGKTLAFLIPAVELInklrfmpRNGTGVIIISPTRELSMQTFGVLKEL 282
Cdd:COG3505   6 GPTGSGKTVGLVIPNLTQL-------ARGESVVVTDPKGDLAELTAGFRRRA 50
SF2_C_TRCF cd18810
C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair ...
 457-542 5.62e-03

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: 38.09  E-value: 5.62e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 457 DLPVTSIHGKQKQTKRTTTFFQFCNAESGILLCTDVAARGLDIPQVDWIVQYDPPDDPREYIH----RVGRtargSGTSG 532
Cdd:cd18810  51 EARIAIAHGQMTENELEEVMLEFAKGEYDILVCTTIIESGIDIPNANTIIIERADKFGLAQLYqlrgRVGR----SKERA 126

                        90
                ....*....|
gi 28571809 533 HALLLMRPEE 542
Cdd:cd18810 127 YAYFLYPDQK 136
DDXDc_reverse_gyrase cd17924
DDXD-box helicase domain of reverse gyrase; Reverse gyrase modifies the topological state of ...
 221-347 9.00e-03

DDXD-box helicase domain of reverse gyrase; Reverse gyrase modifies the topological state of DNA by introducing positive supercoils in an ATP-dependent process. Reverse gyrase 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: 350682 [Multi-domain]  Cd Length: 189  Bit Score: 38.08  E-value: 9.00e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28571809 221 LLKGRDLVGAAQTGSGKTLAFLIPAVelinklrFMPRNGTGVIIISPTRELSMQTFGVLKELMAHHHH-----TYGLVMG 295
Cdd:cd17924  29 LLRGKSFAIIAPTGVGKTTFGLATSL-------YLASKGKRSYLIFPTKSLVKQAYERLSKYAEKAGVevkilVYHSRLK 101

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28571809 296 GSNRQVESEKLGKG-INILVATPGrlldhlqnspdFLYKNLQCL--------IIDEVDRIL 347
Cdd:cd17924 102 KKEKEELLEKIEKGdFDILVTTNQ-----------FLSKNFDLLsnkkfdfvFVDDVDAVL 151
 
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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