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Conserved domains on  [gi|38372907|ref|NP_932099|]
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ATP-dependent RNA helicase DDX39A isoform a [Mus musculus]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 13028696)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; such as Bacillus cereus ATP-dependent RNA helicase DbpA that is involved in the assembly of the 50S ribosomal subunit

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 43-250 3.13e-161

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: 452.18  E-value: 3.13e-161
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  43 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTR 122
Cdd:cd17950   1 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQLEPVDGQVSVLVICHTR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 123 ELAFQISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLE 202
Cdd:cd17950  81 ELAFQISNEYERFSKYMPNVKTAVFFGGVPIKKDIEVLKNKCPHIVVGTPGRILALVREKKLKLSHVKHFVLDECDKMLE 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 38372907 203 QLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFV 250
Cdd:cd17950 161 QLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPLEIFV 208
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 261-390 8.86e-51

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: 167.68  E-value: 8.86e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 261 LQQYYVKLKDSEKNRKLF-DLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRI 339
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLlLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 38372907 340 LVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFV 390
Cdd:cd18787  81 LVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
 
Name Accession Description Interval E-value
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 43-250 3.13e-161

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: 452.18  E-value: 3.13e-161
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  43 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTR 122
Cdd:cd17950   1 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQLEPVDGQVSVLVICHTR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 123 ELAFQISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLE 202
Cdd:cd17950  81 ELAFQISNEYERFSKYMPNVKTAVFFGGVPIKKDIEVLKNKCPHIVVGTPGRILALVREKKLKLSHVKHFVLDECDKMLE 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 38372907 203 QLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFV 250
Cdd:cd17950 161 QLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPLEIFV 208
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
46-421 8.35e-129

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 377.95  E-value: 8.35e-129
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEP-VNGQVSVLVMCHTREL 124
Cdd:COG0513   4 FADLGLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPsRPRAPQALILAPTREL 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 125 AFQISKEYERFSKYMPsVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLeql 204
Cdd:COG0513  84 ALQVAEELRKLAKYLG-LRVATVYGGVSIGRQIRALKRG-VDIVVATPGRLLDLIERGALDLSGVETLVLDEADRML--- 158

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 205 DM--RRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKlTLHGLQQYYVKLKDSEKNRKLFDLLD 282
Cdd:COG0513 159 DMgfIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENA-TAETIEQRYYLVDKRDKLELLRRLLR 237

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 283 VLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYD 362
Cdd:COG0513 238 DEDPERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYD 317

                       330       340       350       360       370       380
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 38372907 363 MPEDSDTYLHRVARAGRFGTKGLAVTFVSDEnDAKILNDVQD--RFEVNVAELPEEIDIST 421
Cdd:COG0513 318 LPEDPEDYVHRIGRTGRAGAEGTAISLVTPD-ERRLLRAIEKliGQKIEEEELPGFEPVEE 377
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 51-415 1.33e-82

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 260.89  E-value: 1.33e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   51 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQISK 130
Cdd:PRK11776  11 LPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAK 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  131 EYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMleqLDM--RR 208
Cdd:PRK11776  91 EIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHG-AHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRM---LDMgfQD 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  209 DVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKLTlhGLQQYYVKLKDSEKNRKLFDLLDVLEFNQ 288
Cdd:PRK11776 167 AIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLP--AIEQRFYEVSPDERLPALQRLLLHHQPES 244

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  289 VVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSD 368
Cdd:PRK11776 245 CVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPE 324

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 38372907  369 TYLHRVARAGRFGTKGLAVTFVSDENDAKI--LNDVQDRfEVNVAELPE 415
Cdd:PRK11776 325 VHVHRIGRTGRAGSKGLALSLVAPEEMQRAnaIEDYLGR-KLNWEPLPS 372
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 261-390 8.86e-51

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: 167.68  E-value: 8.86e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 261 LQQYYVKLKDSEKNRKLF-DLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRI 339
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLlLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 38372907 340 LVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFV 390
Cdd:cd18787  81 LVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 68-235 5.64e-48

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: 161.64  E-value: 5.64e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907    68 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQISKEYERFSKYMpSVKVSVF 147
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGL-GLKVASL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   148 FGGLSIKKDEDVLKKncPHVVVGTPGRILALVRSRSLnLRNVKHFVLDECDKMLEQlDMRRDVQEIFRLTPHEKQCMMFS 227
Cdd:pfam00270  80 LGGDSRKEQLEKLKG--PDILVGTPGRLLDLLQERKL-LKNLKLLVLDEAHRLLDM-GFGPDLEEILRRLPKKRQILLLS 155


                  ....*...
gi 38372907   228 ATLSKEIR 235
Cdd:pfam00270 156 ATLPRNLE 163
DEXDc smart00487
DEAD-like helicases superfamily;
59-264 6.28e-47

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 159.96  E-value: 6.28e-47
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907     59 IVDCGFEHPSEVQHECIPQAILG-MDVLCQAKSGMGKTAVFVLATLQQIEPVNGQvSVLVMCHTRELAFQISKEYERFSK 137
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG-RVLVLVPTRELAEQWAEELKKLGP 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907    138 YMPsVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQlDMRRDVQEIFRLT 217
Cdd:smart00487  80 SLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRLLDG-GFGDQLEKLLKLL 157

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*..
gi 38372907    218 PHEKQCMMFSATLSKEIRPVCRKFMQDPMEVfvdDETKLTLHGLQQY 264
Cdd:smart00487 158 PKNVQLLLLSATPPEEIENLLELFLNDPVFI---DVGFTPLEPIEQF 201
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 272-381 1.30e-28

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: 108.45  E-value: 1.30e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   272 EKNRKLFDLLDVLEFNQVVIFVKSVQRCMAlAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMD 351
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA-ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLD 79

                          90       100       110
                  ....*....|....*....|....*....|
gi 38372907   352 IERVNIVFNYDMPEDSDTYLHRVARAGRFG 381
Cdd:pfam00271  80 LPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
302-381 7.30e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 91.89  E-value: 7.30e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907    302 LAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFG 381
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
266-399 6.82e-12

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


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 67.09  E-value: 6.82e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 266 VKLKDSEKNRKLFDLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNL 345
Cdd:COG0514 210 VPKPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKVEELAEWLREAGIRAAAYHAGLDAEEREANQDRFLRDEVDVIVATIA 289

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....
gi 38372907 346 FGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVSDEnDAKIL 399
Cdd:COG0514 290 FGMGIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPE-DVAIQ 342
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 290-389 1.08e-05

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 47.79  E-value: 1.08e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  290 VIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERlSRYQQfkDFQR---RILVATNLFGRGMDIERVNIVFNYDMPED 366
Cdd:PRK11057 240 IIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVR-ADVQE--AFQRddlQIVVATVAFGMGINKPNVRFVVHFDIPRN 316

                         90       100
                 ....*....|....*....|...
gi 38372907  367 SDTYLHRVARAGRFGTKGLAVTF 389
Cdd:PRK11057 317 IESYYQETGRAGRDGLPAEAMLF 339
 
Name Accession Description Interval E-value
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 43-250 3.13e-161

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: 452.18  E-value: 3.13e-161
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  43 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTR 122
Cdd:cd17950   1 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQLEPVDGQVSVLVICHTR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 123 ELAFQISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLE 202
Cdd:cd17950  81 ELAFQISNEYERFSKYMPNVKTAVFFGGVPIKKDIEVLKNKCPHIVVGTPGRILALVREKKLKLSHVKHFVLDECDKMLE 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 38372907 203 QLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFV 250
Cdd:cd17950 161 QLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPLEIFV 208
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
46-421 8.35e-129

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 377.95  E-value: 8.35e-129
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEP-VNGQVSVLVMCHTREL 124
Cdd:COG0513   4 FADLGLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPsRPRAPQALILAPTREL 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 125 AFQISKEYERFSKYMPsVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLeql 204
Cdd:COG0513  84 ALQVAEELRKLAKYLG-LRVATVYGGVSIGRQIRALKRG-VDIVVATPGRLLDLIERGALDLSGVETLVLDEADRML--- 158

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 205 DM--RRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKlTLHGLQQYYVKLKDSEKNRKLFDLLD 282
Cdd:COG0513 159 DMgfIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENA-TAETIEQRYYLVDKRDKLELLRRLLR 237

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 283 VLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYD 362
Cdd:COG0513 238 DEDPERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYD 317

                       330       340       350       360       370       380
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 38372907 363 MPEDSDTYLHRVARAGRFGTKGLAVTFVSDEnDAKILNDVQD--RFEVNVAELPEEIDIST 421
Cdd:COG0513 318 LPEDPEDYVHRIGRTGRAGAEGTAISLVTPD-ERRLLRAIEKliGQKIEEEELPGFEPVEE 377
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 51-415 1.33e-82

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 260.89  E-value: 1.33e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   51 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQISK 130
Cdd:PRK11776  11 LPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAK 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  131 EYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMleqLDM--RR 208
Cdd:PRK11776  91 EIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHG-AHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRM---LDMgfQD 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  209 DVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKLTlhGLQQYYVKLKDSEKNRKLFDLLDVLEFNQ 288
Cdd:PRK11776 167 AIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLP--AIEQRFYEVSPDERLPALQRLLLHHQPES 244

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  289 VVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSD 368
Cdd:PRK11776 245 CVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPE 324

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 38372907  369 TYLHRVARAGRFGTKGLAVTFVSDENDAKI--LNDVQDRfEVNVAELPE 415
Cdd:PRK11776 325 VHVHRIGRTGRAGSKGLALSLVAPEEMQRAnaIEDYLGR-KLNWEPLPS 372
PTZ00424 PTZ00424
helicase 45; Provisional
 14-417 1.78e-82

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 258.99  E-value: 1.78e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   14 DEDEEPQAPQESTpappKKDVKGSYVSIHSSgFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMG 93
Cdd:PTZ00424   3 TSEQKNQSEQVAS----TGTIESNYDEIVDS-FDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTG 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   94 KTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPG 173
Cdd:PTZ00424  78 KTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYL-KVRCHACVGGTVVRDDINKLKAGV-HMVVGTPG 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  174 RILALVRSRSLNLRNVKHFVLDECDKMLEQlDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDE 253
Cdd:PTZ00424 156 RVYDMIDKRHLRVDDLKLFILDEADEMLSR-GFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKD 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  254 tKLTLHGLQQYYVKL-KDSEKNRKLFDLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQF 332
Cdd:PTZ00424 235 -ELTLEGIRQFYVAVeKEEWKFDTLCDLYETLTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREF 313

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  333 KDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVSDEnDAKILNDVQDRFEVNVAE 412
Cdd:PTZ00424 314 RSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPD-DIEQLKEIERHYNTQIEE 392


                 ....*
gi 38372907  413 LPEEI 417
Cdd:PTZ00424 393 MPMEV 397
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 46-414 4.97e-77

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 251.31  E-value: 4.97e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELA 125
Cdd:PRK11634   8 FADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELA 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  126 FQISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLeQLD 205
Cdd:PRK11634  88 VQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQG-PQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEML-RMG 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  206 MRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKlTLHGLQQYYVKLKDSEKNRKLFDLLDVLE 285
Cdd:PRK11634 166 FIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVT-TRPDISQSYWTVWGMRKNEALVRFLEAED 244

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  286 FNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPE 365
Cdd:PRK11634 245 FDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPM 324

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|.
gi 38372907  366 DSDTYLHRVARAGRFGTKGLAVTFVsDENDAKILNDVQDRFEVNV--AELP 414
Cdd:PRK11634 325 DSESYVHRIGRTGRAGRAGRALLFV-ENRERRLLRNIERTMKLTIpeVELP 374
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 55-248 7.64e-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: 236.95  E-value: 7.64e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEP----VNGQVSVLVMCHTRELAFQISK 130
Cdd:cd00268   1 LLKALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILEKLLPepkkKGRGPQALVLAPTRELAMQIAE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 131 EYERFSKYMPsVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEqLDMRRDV 210
Cdd:cd00268  81 VARKLGKGTG-LKVAAIYGGAPIKKQIEALKKG-PDIVVGTPGRLLDLIERGKLDLSNVKYLVLDEADRMLD-MGFEEDV 157

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 38372907 211 QEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd00268 158 EKILSALPKDRQTLLFSATLPEEVKELAKKFLKNPVRI 195
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 46-399 3.35e-69

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 225.59  E-value: 3.35e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI------EPvnGQVSVLVMC 119
Cdd:PRK11192   3 FSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLldfprrKS--GPPRILILT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  120 HTRELAFQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDK 199
Cdd:PRK11192  81 PTRELAMQVADQARELAKHT-HLDIATITGGVAYMNHAEVFSEN-QDIVVATPGRLLQYIKEENFDCRAVETLILDEADR 158

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  200 MLeqlDM--RRDVQEIFRLTPHEKQCMMFSATL-SKEIRPVCRKFMQDPMEVFVD---DETKltlhGLQQYYVKLKDSEK 273
Cdd:PRK11192 159 ML---DMgfAQDIETIAAETRWRKQTLLFSATLeGDAVQDFAERLLNDPVEVEAEpsrRERK----KIHQWYYRADDLEH 231

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  274 NRKLfdLLDVLEFNQV---VIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGM 350
Cdd:PRK11192 232 KTAL--LCHLLKQPEVtrsIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGI 309

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 38372907  351 DIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVsDENDAKIL 399
Cdd:PRK11192 310 DIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISLV-EAHDHLLL 357
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 19-396 5.31e-61

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 205.15  E-value: 5.31e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   19 PQAPQESTPAP--PKKDVKGSYVSI------------HSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDV 84
Cdd:PRK01297  48 AAAPRAEKPKKdkPRRERKPKPASLwkledfvvepqeGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDA 127

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   85 LCQAKSGMGKTAVFVLATLQQI-------EPVNGQVSVLVMCHTRELAFQISKEYERFSKYMpSVKVSVFFGGLSIKKDE 157
Cdd:PRK01297 128 IGRAQTGTGKTAAFLISIINQLlqtpppkERYMGEPRALIIAPTRELVVQIAKDAAALTKYT-GLNVMTFVGGMDFDKQL 206

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  158 DVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEqLDMRRDVQEIFRLTPH--EKQCMMFSATLSKEIR 235
Cdd:PRK01297 207 KQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLD-MGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVM 285

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  236 PVCRKFMQDPMEVFVDDETKlTLHGLQQYYVKLKDSEKNRKLFDLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIA 315
Cdd:PRK01297 286 NLAKQWTTDPAIVEIEPENV-ASDTVEQHVYAVAGSDKYKLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGINAAQ 364

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  316 IHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVSdEND 395
Cdd:PRK01297 365 LSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAG-EDD 443


                 .
gi 38372907  396 A 396
Cdd:PRK01297 444 A 444
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 46-248 1.01e-58

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: 190.59  E-value: 1.01e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELA 125
Cdd:cd17940   1 FEDYGLKRELLMGIFEKGFEKPSPIQEESIPIALSGRDILARAKNGTGKTGAYLIPILEKIDPKKDVIQALILVPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 126 FQISKEYERFSKYMpSVKVSVFFGGLSIKkdEDVLK-KNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQl 204
Cdd:cd17940  81 LQTSQVCKELGKHM-GVKVMVTTGGTSLR--DDIMRlYQTVHVLVGTPGRILDLAKKGVADLSHCKTLVLDEADKLLSQ- 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 38372907 205 DMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17940 157 DFQPIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNPYEI 200
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 51-403 2.49e-57

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 195.03  E-value: 2.49e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   51 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQ------VSVLVMCHTREL 124
Cdd:PRK10590   8 LSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHakgrrpVRALILTPTREL 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  125 AFQISKEYERFSKYMPsVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLeql 204
Cdd:PRK10590  88 AAQIGENVRDYSKYLN-IRSLVVFGGVSINPQMMKLRGGV-DVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRML--- 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  205 DMR--RDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKLTLHGLQqyYVKLKDSEKNRKLF-DLL 281
Cdd:PRK10590 163 DMGfiHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQ--HVHFVDKKRKRELLsQMI 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  282 DVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNY 361
Cdd:PRK10590 241 GKGNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNY 320

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 38372907  362 DMPEDSDTYLHRVARAGRFGTKGLAVTFVS-DENdaKILNDVQ 403
Cdd:PRK10590 321 ELPNVPEDYVHRIGRTGRAAATGEALSLVCvDEH--KLLRDIE 361
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 48-249 9.75e-57

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: 185.61  E-value: 9.75e-57
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  48 DFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQ 127
Cdd:cd17939   1 DMGLSEDLLRGIYAYGFEKPSAIQQRAIVPIIKGRDVIAQAQSGTGKTATFSIGALQRIDTTVRETQALVLAPTRELAQQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 128 ISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQlDMR 207
Cdd:cd17939  81 IQKVVKALGDYM-GVKVHACIGGTSVREDRRKLQYG-PHIVVGTPGRVFDMLQRRSLRTDKIKMFVLDEADEMLSR-GFK 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 38372907 208 RDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVF 249
Cdd:cd17939 158 DQIYDIFQFLPPETQVVLFSATMPHEVLEVTKKFMRDPVRIL 199
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 46-426 6.56e-56

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 190.18  E-value: 6.56e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT----LQQIEPVNGQVS---VLVM 118
Cdd:PRK04837  10 FSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATfhylLSHPAPEDRKVNqprALIM 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  119 CHTRELAFQISKEYERFSKyMPSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECD 198
Cdd:PRK04837  90 APTRELAVQIHADAEPLAQ-ATGLKLGLAYGGDGYDKQLKVLESG-VDILIGTTGRLIDYAKQNHINLGAIQVVVLDEAD 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  199 KMLEqLDMRRDVQEIFRLTPHEKQ--CMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKlTLHGLQQYyvklkdseknrk 276
Cdd:PRK04837 168 RMFD-LGFIKDIRWLFRRMPPANQrlNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQK-TGHRIKEE------------ 233

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  277 lfdlldvlefnqvvIFVKSVQRCMALAQLLVEQNFPAIAI--------------------HR-GM-----AQEERLSRYQ 330
Cdd:PRK04837 234 --------------LFYPSNEEKMRLLQTLIEEEWPDRAIifantkhrceeiwghlaadgHRvGLltgdvAQKKRLRILE 299

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  331 QFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVSDEndaKILNdvqdrfevnv 410
Cdd:PRK04837 300 EFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLACEE---YALN---------- 366

                        410
                 ....*....|....*.
gi 38372907  411 aeLPEeidISTYIEQS 426
Cdd:PRK04837 367 --LPA---IETYIGHS 377
PTZ00110 PTZ00110
helicase; Provisional
 32-391 2.21e-55

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 191.91  E-value: 2.21e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   32 KDVKGSYVSIHSSGFRDFLLKpellrAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI----- 106
Cdd:PTZ00110 123 ENVPKPVVSFEYTSFPDYILK-----SLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHInaqpl 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  107 -EPVNGQVsVLVMCHTRELAFQISKEYERFSKyMPSVKVSVFFGGLSiKKDEDVLKKNCPHVVVGTPGRILALVRSRSLN 185
Cdd:PTZ00110 198 lRYGDGPI-VLVLAPTRELAEQIREQCNKFGA-SSKIRNTVAYGGVP-KRGQIYALRRGVEILIACPGRLIDFLESNVTN 274

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  186 LRNVKHFVLDECDKMLE---QLDMRRDVQEIfrlTPhEKQCMMFSATLSKEI----RPVCRkfmQDPMEVFVDDETKLTL 258
Cdd:PTZ00110 275 LRRVTYLVLDEADRMLDmgfEPQIRKIVSQI---RP-DRQTLMWSATWPKEVqslaRDLCK---EEPVHVNVGSLDLTAC 347

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  259 HGLQQYYVKLKDSEKNRKLFDLLDVL--EFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQ 336
Cdd:PTZ00110 348 HNIKQEVFVVEEHEKRGKLKMLLQRImrDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGK 427

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 38372907  337 RRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVS 391
Cdd:PTZ00110 428 SPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLT 482
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 55-248 9.28e-55

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: 180.15  E-value: 9.28e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQISKEYER 134
Cdd:cd17943   1 VLEGLKAAGFQRPSPIQLAAIPLGLAGHDLIVQAKSGTGKTLVFVVIALESLDLERRHPQVLILAPTREIAVQIHDVFKK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 135 FSKYMPSVKVSVFFGGLSIKKDEDVLKknCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQlDMRRDVQEIF 214
Cdd:cd17943  81 IGKKLEGLKCEVFIGGTPVKEDKKKLK--GCHIAVGTPGRIKQLIELGALNVSHVRLFVLDEADKLMEG-SFQKDVNWIF 157

                       170       180       190
                ....*....|....*....|....*....|....
gi 38372907 215 RLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17943 158 SSLPKNKQVIAFSATYPKNLDNLLARYMRKPVLV 191
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 261-390 8.86e-51

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: 167.68  E-value: 8.86e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 261 LQQYYVKLKDSEKNRKLF-DLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRI 339
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLlLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRV 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 38372907 340 LVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFV 390
Cdd:cd18787  81 LVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 51-242 4.52e-50

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: 168.53  E-value: 4.52e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  51 LKPELLRAIVDCGFEHPSEVQHECIPQAI-LGMDVLCQAKSGMGKTAVFVLATLQ-----QIEPVNGQVSVLVMCHTREL 124
Cdd:cd17964   1 LDPSLLKALTRMGFETMTPVQQKTLKPILsTGDDVLARAKTGTGKTLAFLLPAIQsllntKPAGRRSGVSALIISPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 125 AFQISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRSL--NLRNVKHFVLDECDKMle 202
Cdd:cd17964  81 ALQIAAEAKKLLQGLRKLRVQSAVGGTSRRAELNRLRRGRPDILVATPGRLIDHLENPGVakAFTDLDYLVLDEADRL-- 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 38372907 203 qLDM--RRDVQEIFRLTPHEK----QCMMFSATLSKEIRPVCRKFM 242
Cdd:cd17964 159 -LDMgfRPDLEQILRHLPEKNadprQTLLFSATVPDEVQQIARLTL 203
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 46-248 4.53e-50

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: 168.39  E-value: 4.53e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELA 125
Cdd:cd18046   1 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIMPCIKGYDVIAQAQSGTGKTATFSISILQQIDTSLKATQALVLAPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 126 FQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQlD 205
Cdd:cd18046  81 QQIQKVVMALGDYM-GIKCHACIGGTSVRDDAQKLQAG-PHIVVGTPGRVFDMINRRYLRTDYIKMFVLDEADEMLSR-G 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 38372907 206 MRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd18046 158 FKDQIYDIFQKLPPDTQVVLLSATMPNDVLEVTTKFMRDPIRI 200
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 46-425 5.25e-50

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 177.84  E-value: 5.25e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVS-------VLVM 118
Cdd:PRK04537  11 FSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADrkpedprALIL 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  119 CHTRELAFQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRS-RSLNLRNVKHFVLDEC 197
Cdd:PRK04537  91 APTRELAIQIHKDAVKFGADL-GLRFALVYGGVDYDKQRELLQQGV-DVIIATPGRLIDYVKQhKVVSLHACEICVLDEA 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  198 DKMLEqLDMRRDVQEIFRLTPHE--KQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKLTLHGLQQYYVKlKDSEKNR 275
Cdd:PRK04537 169 DRMFD-LGFIKDIRFLLRRMPERgtRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFP-ADEEKQT 246

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  276 KLFDLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERV 355
Cdd:PRK04537 247 LLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGV 326

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  356 NIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVSdendakilndvqDRFEVNvaeLPeeiDISTYIEQ 425
Cdd:PRK04537 327 KYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFAC------------ERYAMS---LP---DIEAYIEQ 378
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 68-235 5.64e-48

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: 161.64  E-value: 5.64e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907    68 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQISKEYERFSKYMpSVKVSVF 147
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGL-GLKVASL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   148 FGGLSIKKDEDVLKKncPHVVVGTPGRILALVRSRSLnLRNVKHFVLDECDKMLEQlDMRRDVQEIFRLTPHEKQCMMFS 227
Cdd:pfam00270  80 LGGDSRKEQLEKLKG--PDILVGTPGRLLDLLQERKL-LKNLKLLVLDEAHRLLDM-GFGPDLEEILRRLPKKRQILLLS 155


                  ....*...
gi 38372907   228 ATLSKEIR 235
Cdd:pfam00270 156 ATLPRNLE 163
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 55-249 6.46e-48

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: 162.42  E-value: 6.46e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI---EPVNGQVSVLVMCHTRELAFQISKE 131
Cdd:cd17947   1 LLRALSSLGFTKPTPIQAAAIPLALLGKDICASAVTGSGKTAAFLLPILERLlyrPKKKAATRVLVLVPTRELAMQCFSV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 132 YERFSKYMPsVKVSVFFGGLSIKKDEDVLKKnCPHVVVGTPGRILALVR-SRSLNLRNVKHFVLDECDKMLEqLDMRRDV 210
Cdd:cd17947  81 LQQLAQFTD-ITFALAVGGLSLKAQEAALRA-RPDIVIATPGRLIDHLRnSPSFDLDSIEILVLDEADRMLE-EGFADEL 157

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 38372907 211 QEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVF 249
Cdd:cd17947 158 KEILRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVRVF 196
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 46-248 9.25e-48

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: 162.10  E-value: 9.25e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELA 125
Cdd:cd17954   2 FKELGVCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLENPQRFFALVLAPTRELA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 126 FQISKEYERFSKyMPSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRIL-ALVRSRSLNLRNVKHFVLDECDKMLEqL 204
Cdd:cd17954  82 QQISEQFEALGS-SIGLKSAVLVGGMDMMAQAIALAKK-PHVIVATPGRLVdHLENTKGFSLKSLKFLVMDEADRLLN-M 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 38372907 205 DMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17954 159 DFEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKI 202
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 46-247 4.48e-47

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: 160.47  E-value: 4.48e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI--EPVNgqVSVLVMCHTRE 123
Cdd:cd17955   1 FEDLGLSSWLVKQCASLGIKEPTPIQKLCIPEILAGRDVIGGAKTGSGKTAAFALPILQRLseDPYG--IFALVLTPTRE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 124 LAFQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKnCPHVVVGTPGRILALVRSRSL---NLRNVKHFVLDECDKM 200
Cdd:cd17955  79 LAYQIAEQFRALGAPL-GLRCCVIVGGMDMVKQALELSK-RPHIVVATPGRLADHLRSSDDttkVLSRVKFLVLDEADRL 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 38372907 201 LEQlDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPME 247
Cdd:cd17955 157 LTG-SFEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKPFF 202
DEXDc smart00487
DEAD-like helicases superfamily;
59-264 6.28e-47

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 159.96  E-value: 6.28e-47
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907     59 IVDCGFEHPSEVQHECIPQAILG-MDVLCQAKSGMGKTAVFVLATLQQIEPVNGQvSVLVMCHTRELAFQISKEYERFSK 137
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG-RVLVLVPTRELAEQWAEELKKLGP 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907    138 YMPsVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQlDMRRDVQEIFRLT 217
Cdd:smart00487  80 SLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRLLDG-GFGDQLEKLLKLL 157

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*..
gi 38372907    218 PHEKQCMMFSATLSKEIRPVCRKFMQDPMEVfvdDETKLTLHGLQQY 264
Cdd:smart00487 158 PKNVQLLLLSATPPEEIENLLELFLNDPVFI---DVGFTPLEPIEQF 201
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 51-248 1.61e-46

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: 158.89  E-value: 1.61e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  51 LKPELLRAIVDCGFEHPSEVQHECIPqaILGMDV----LCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAF 126
Cdd:cd17963   1 LKPELLKGLYAMGFNKPSKIQETALP--LILSDPpenlIAQSQSGTGKTAAFVLAMLSRVDPTLKSPQALCLAPTRELAR 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 127 QISKEYERFSKYmPSVKVsvffgGLSIK-KDEDVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQLD 205
Cdd:cd17963  79 QIGEVVEKMGKF-TGVKV-----ALAVPgNDVPRGKKITAQIVIGTPGTVLDWLKKRQLDLKKIKILVLDEADVMLDTQG 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 38372907 206 MRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17963 153 HGDQSIRIKRMLPRNCQILLFSATFPDSVRKFAEKIAPNANTI 195
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 34-427 4.20e-45

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 163.81  E-value: 4.20e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   34 VKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL------ATLQQIE 107
Cdd:PLN00206 111 VKGEAVPPPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVpiisrcCTIRSGH 190

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  108 PVNGQVSV-LVMCHTRELAFQISKEYERFSKYMPsVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNL 186
Cdd:PLN00206 191 PSEQRNPLaMVLTPTRELCVQVEDQAKVLGKGLP-FKTALVVGGDAMPQQLYRIQQGV-ELIVGTPGRLIDLLSKHDIEL 268

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  187 RNVKHFVLDECDKMLEQlDMRRDVQEIFRLTPhEKQCMMFSATLSKEIRPVCRKFMQDPMEVFVDDETKLTlHGLQQYYV 266
Cdd:PLN00206 269 DNVSVLVLDEVDCMLER-GFRDQVMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPN-KAVKQLAI 345

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  267 KLKDSEKNRKLFDLLDVLEFNQ--VVIFVKSVQRCMALAQLL-VEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVAT 343
Cdd:PLN00206 346 WVETKQKKQKLFDILKSKQHFKppAVVFVSSRLGADLLANAItVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVAT 425

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  344 NLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVSDENDAkILNDVQDRFEVNVAELPEEIDISTYI 423
Cdd:PLN00206 426 GVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEEDRN-LFPELVALLKSSGAAIPRELANSRYL 504


                 ....
gi 38372907  424 EQSR 427
Cdd:PLN00206 505 GSGR 508
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 46-248 1.61e-43

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: 151.32  E-value: 1.61e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQqiepvngQVSVLVMCHTRELA 125
Cdd:cd17938   1 FEELGVMPELIKAVEELDWLLPTDIQAEAIPLILGGGDVLMAAETGSGKTGAFCLPVLQ-------IVVALILEPSRELA 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 126 FQISKEYERFSKYM--PSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQ 203
Cdd:cd17938  74 EQTYNCIENFKKYLdnPKLRVALLIGGVKAREQLKRLESGV-DIVVGTPGRLEDLIKTGKLDLSSVRFFVLDEADRLLSQ 152

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 38372907 204 lDMRRDVQEIFRLTPHEK------QCMMFSATL-SKEIRPVCRKFMQDPMEV 248
Cdd:cd17938 153 -GNLETINRIYNRIPKITsdgkrlQVIVCSATLhSFEVKKLADKIMHFPTWV 203
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 46-248 1.25e-42

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: 148.77  E-value: 1.25e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELA 125
Cdd:cd18045   1 FETMGLREDLLRGIYAYGFEKPSAIQQRAIKPIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILSPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 126 FQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQlD 205
Cdd:cd18045  81 VQIQKVLLALGDYM-NVQCHACIGGTSVGDDIRKLDYGQ-HIVSGTPGRVFDMIRRRSLRTRHIKMLVLDEADEMLNK-G 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 38372907 206 MRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd18045 158 FKEQIYDVYRYLPPATQVVLVSATLPQDILEMTNKFMTDPIRI 200
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 55-250 4.28e-38

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: 136.57  E-value: 4.28e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEP--VNGQVSVLVMCHTRELAFQISKEY 132
Cdd:cd17957   1 LLNNLEESGYREPTPIQMQAIPILLHGRDLLACAPTGSGKTLAFLIPILQKLGKprKKKGLRALILAPTRELASQIYREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 133 ERFSKYMPsVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQLdMRRDVQE 212
Cdd:cd17957  81 LKLSKGTG-LRIVLLSKSLEAKAKDGPKSITKYDILVSTPLRLVFLLKQGPIDLSSVEYLVLDEADKLFEPG-FREQTDE 158

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 38372907 213 IFR-LTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFV 250
Cdd:cd17957 159 ILAaCTNPNLQRSLFSATIPSEVEELARSVMKDPIRIIV 197
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 51-245 1.94e-37

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: 135.02  E-value: 1.94e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  51 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI------EPVNGQVSVLVMCHTREL 124
Cdd:cd17961   1 LDPRLLKAIAKLGWEKPTLIQSKAIPLALEGKDILARARTGSGKTAAYALPIIQKIlkakaeSGEEQGTRALILVPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 125 AFQISKEYERFSKYMpSVKVSVFfgGLSIKKDEDVLK---KNCPHVVVGTPGRILALVRS-RSLNLRNVKHFVLDECDKM 200
Cdd:cd17961  81 AQQVSKVLEQLTAYC-RKDVRVV--NLSASSSDSVQRallAEKPDIVVSTPARLLSHLESgSLLLLSTLKYLVIDEADLV 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*....
gi 38372907 201 L----EQldmrrDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDP 245
Cdd:cd17961 158 LsygyEE-----DLKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHNP 201
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 44-245 2.64e-37

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: 134.74  E-value: 2.64e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  44 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI---EPVNGqVSVLVMCH 120
Cdd:cd17959   1 GGFQSMGLSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLkahSPTVG-ARALILSP 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 121 TRELAFQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKM 200
Cdd:cd17959  80 TRELALQTLKVTKELGKFT-DLRTALLVGGDSLEEQFEALASN-PDIIIATPGRLLHLLVEMNLKLSSVEYVVFDEADRL 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 38372907 201 LEqLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDP 245
Cdd:cd17959 158 FE-MGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEP 201
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 55-248 9.33e-37

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: 132.92  E-value: 9.33e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL------QQIEPVNGQVsVLVMCHTRELAFQI 128
Cdd:cd17952   1 LLNAIRKQEYEQPTPIQAQALPVALSGRDMIGIAKTGSGKTAAFIWPMLvhimdqRELEKGEGPI-AVIVAPTRELAQQI 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 129 SKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEqLDMRR 208
Cdd:cd17952  80 YLEAKKFGKAY-NLRVVAVYGGGSKWEQAKALQEGA-EIVVATPGRLIDMVKKKATNLQRVTYLVLDEADRMFD-MGFEY 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 38372907 209 DVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17952 157 QVRSIVGHVRPDRQTLLFSATFKKKIEQLARDILSDPIRV 196
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 51-244 3.44e-36

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: 132.23  E-value: 3.44e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  51 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI-----EPVNG-----QVSVLVMCH 120
Cdd:cd17967   7 LRELLLENIKRAGYTKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPIISKLledgpPSVGRgrrkaYPSALILAP 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 121 TRELAFQISKEYERFSKYMPsVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALV-RSRsLNLRNVKHFVLDECDK 199
Cdd:cd17967  87 TRELAIQIYEEARKFSYRSG-VRSVVVYGGADVVHQQLQLLRGC-DILVATPGRLVDFIeRGR-ISLSSIKFLVLDEADR 163

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 38372907 200 MLEQ---LDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQD 244
Cdd:cd17967 164 MLDMgfePQIRKIVEHPDMPPKGERQTLMFSATFPREIQRLAADFLKN 211
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 55-232 1.35e-35

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: 131.21  E-value: 1.35e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAIL-GMDVLCQAKSGMGKTAVF-------VLATLQQIEPVNGQ--VSVLVMCHTREL 124
Cdd:cd17946   1 ILRALADLGFSEPTPIQALALPAAIRdGKDVIGAAETGSGKTLAFgipilerLLSQKSSNGVGGKQkpLRALILTPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 125 AFQISKEYERFSKYmPSVKVSVFFGGLSIKKDEDVLKKnCPHVVVGTPGRILALVRSRSL---NLRNVKHFVLDECDKML 201
Cdd:cd17946  81 AVQVKDHLKAIAKY-TNIKIASIVGGLAVQKQERLLKK-RPEIVVATPGRLWELIQEGNEhlaNLKSLRFLVLDEADRML 158

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 38372907 202 EQLDMrRDVQEIFRLTP-------HEKQCMMFSATLSK 232
Cdd:cd17946 159 EKGHF-AELEKILELLNkdragkkRKRQTFVFSATLTL 195
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 51-248 7.69e-34

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: 125.95  E-value: 7.69e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  51 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI------EPVNGQVSvLVMCHTREL 124
Cdd:cd17953  19 LSEKVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLPMFRHIkdqrpvKPGEGPIG-LIMAPTREL 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 125 AFQISKEYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGR---ILALVRSRSLNLRNVKHFVLDECDKML 201
Cdd:cd17953  98 ALQIYVECKKFSKAL-GLRVVCVYGGSGISEQIAELKRGA-EIVVCTPGRmidILTANNGRVTNLRRVTYVVLDEADRMF 175

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 38372907 202 EqLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17953 176 D-MGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKPIEI 221
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 55-248 2.32e-33

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: 124.74  E-value: 2.32e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV---LATLQQIEPVNGQVS-----VLVMCHTRELAF 126
Cdd:cd17945   1 LLRVIRKLGYKEPTPIQRQAIPIGLQNRDIIGIAETGSGKTAAFLiplLVYISRLPPLDEETKddgpyALILAPTRELAQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 127 QISKEYERFSKYMPSVKVSVfFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKM------ 200
Cdd:cd17945  81 QIEEETQKFAKPLGIRVVSI-VGGHSIEEQAFSLRNGC-EILIATPGRLLDCLERRLLVLNQCTYVVLDEADRMidmgfe 158

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 38372907 201 ------LEQLD---MRRDVQEIFRLTPHEK----QCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17945 159 pqvtkiLDAMPvsnKKPDTEEAEKLAASGKhryrQTMMFTATMPPAVEKIAKGYLRRPVVV 219
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 55-248 3.71e-33

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: 123.43  E-value: 3.71e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRELAFQISKEYER 134
Cdd:cd17962   1 LSSNLKKAGYEVPTPIQMQMIPVGLLGRDILASADTGSGKTAAFLLPVIIRCLTEHRNPSALILTPTRELAVQIEDQAKE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 135 FSKYMPSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLeQLDMRRDVQEIF 214
Cdd:cd17962  81 LMKGLPPMKTALLVGGLPLPPQLYRLQQGV-KVIIATPGRLLDILKQSSVELDNIKIVVVDEADTML-KMGFQQQVLDIL 158

                       170       180       190
                ....*....|....*....|....*....|....
gi 38372907 215 RLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17962 159 ENISHDHQTILVSATIPRGIEQLAGQLLQNPVRI 192
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 55-248 6.20e-33

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: 123.07  E-value: 6.20e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI-----EPVNGQVSVLVMCHTRELAFQIS 129
Cdd:cd17960   1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILlkrkaNLKKGQVGALIISPTRELATQIY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 130 KEYERF-SKYMPSVKVSVFFGGLSIKKDEDVLKKNCPHVVVGTPGRILALVRSRS--LNLRNVKHFVLDECDKMLEqLDM 206
Cdd:cd17960  81 EVLQSFlEHHLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAdkVKVKSLEVLVLDEADRLLD-LGF 159

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 38372907 207 RRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17960 160 EADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRV 201
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 33-242 1.61e-31

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: 120.84  E-value: 1.61e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  33 DVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI--EPVN 110
Cdd:cd18052  32 EVTGRNPPPAILTFEEANLCETLLKNIRKAGYEKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPVLTGMmkEGLT 111

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 111 GQVS-------VLVMCHTRELAFQISKEYERFSkYMPSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRS 183
Cdd:cd18052 112 ASSFsevqepqALIVAPTRELANQIFLEARKFS-YGTCIRPVVVYGGVSVGHQIRQIEKGC-HILVATPGRLLDFIGRGK 189

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 38372907 184 LNLRNVKHFVLDECDKMLE---QLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFM 242
Cdd:cd18052 190 ISLSKLKYLILDEADRMLDmgfGPEIRKLVSEPGMPSKEDRQTLMFSATFPEEIQRLAAEFL 251
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 56-250 2.42e-30

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: 115.85  E-value: 2.42e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  56 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ-----QIEPVNGqVSVLVMCHTRELAFQISK 130
Cdd:cd17941   2 LKGLKEAGFIKMTEIQRDSIPHALQGRDILGAAKTGSGKTLAFLVPLLEklyreRWTPEDG-LGALIISPTRELAMQIFE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 131 EYERFSKYMpSVKVSVFFGGLSIKkdEDVLKKNCPHVVVGTPGRILA-LVRSRSLNLRNVKHFVLDECDKMLEqLDMRRD 209
Cdd:cd17941  81 VLRKVGKYH-SFSAGLIIGGKDVK--EEKERINRMNILVCTPGRLLQhMDETPGFDTSNLQMLVLDEADRILD-MGFKET 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|.
gi 38372907 210 VQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVFV 250
Cdd:cd17941 157 LDAIVENLPKSRQTLLFSATQTKSVKDLARLSLKNPEYISV 197
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 55-248 4.92e-30

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: 115.16  E-value: 4.92e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI------EPVNGQVsVLVMCHTRELAFQI 128
Cdd:cd17966   1 VMDELKRQGFTEPTAIQAQGWPMALSGRDMVGIAQTGSGKTLAFLLPAIVHInaqpplERGDGPI-VLVLAPTRELAQQI 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 129 SKEYERFSKyMPSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMleqLDM-- 206
Cdd:cd17966  80 QQEANKFGG-SSRLRNTCVYGGAPKGPQIRDLRRGV-EICIATPGRLIDFLDQGKTNLRRVTYLVLDEADRM---LDMgf 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 38372907 207 ----RRDVQEIfrlTPhEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17966 155 epqiRKIVDQI---RP-DRQTLMWSATWPKEVRRLAEDFLKDYIQV 196
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 42-244 7.98e-30

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: 115.91  E-value: 7.98e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  42 HSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI---EPVNGQVSV--- 115
Cdd:cd18051  19 HIETFSDLDLGEIIRNNIELARYTKPTPVQKHAIPIIKSKRDLMACAQTGSGKTAAFLLPILSQIyeqGPGESLPSEsgy 98

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 116 ----------LVMCHTRELAFQISKEYERFSkYMPSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLN 185
Cdd:cd18051  99 ygrrkqyplaLVLAPTRELASQIYDEARKFA-YRSRVRPCVVYGGADIGQQMRDLERGC-HLLVATPGRLVDMLERGKIG 176

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 38372907 186 LRNVKHFVLDECDKMleqLDM------RRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQD 244
Cdd:cd18051 177 LDYCKYLVLDEADRM---LDMgfepqiRRIVEQDTMPPTGERQTLMFSATFPKEIQMLARDFLDN 238
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 55-248 3.26e-29

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: 113.20  E-value: 3.26e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ---------IEPVNGQVSvLVMCHTRELA 125
Cdd:cd17951   1 ILKGLKKKGIKKPTPIQMQGLPTILSGRDMIGIAFTGSGKTLVFTLPLIMFaleqekklpFIKGEGPYG-LIVCPSRELA 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 126 FQISKEYERFSKY-----MPSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKM 200
Cdd:cd17951  80 RQTHEVIEYYCKAlqeggYPQLRCLLCIGGMSVKEQLEVIRKGV-HIVVATPGRLMDMLNKKKINLDICRYLCLDEADRM 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 38372907 201 LEqLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd17951 159 ID-MGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTV 205
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 272-381 1.30e-28

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: 108.45  E-value: 1.30e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   272 EKNRKLFDLLDVLEFNQVVIFVKSVQRCMAlAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMD 351
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA-ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLD 79

                          90       100       110
                  ....*....|....*....|....*....|
gi 38372907   352 IERVNIVFNYDMPEDSDTYLHRVARAGRFG 381
Cdd:pfam00271  80 LPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 56-239 3.42e-28

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: 110.14  E-value: 3.42e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  56 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI-----EPVNGqVSVLVMCHTRELAFQISK 130
Cdd:cd17942   2 LKAIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLyklkfKPRNG-TGVIIISPTRELALQIYG 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 131 EYERFSKYMpSVKVSVFFGGLSIKKDEDVLKKNCPhVVVGTPGRIL-ALVRSRSLNLRNVKHFVLDECDKMLEQlDMRRD 209
Cdd:cd17942  81 VAKELLKYH-SQTFGIVIGGANRKAEAEKLGKGVN-ILVATPGRLLdHLQNTKGFLYKNLQCLIIDEADRILEI-GFEEE 157

                       170       180       190
                ....*....|....*....|....*....|
gi 38372907 210 VQEIFRLTPHEKQCMMFSATLSKEIRPVCR 239
Cdd:cd17942 158 MRQIIKLLPKRRQTMLFSATQTRKVEDLAR 187
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 31-245 6.74e-27

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: 107.41  E-value: 6.74e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  31 KKDVKGSYVSIHSsgFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILG--MDVLCQAKSGMGKTAVFVLATLQQIEP 108
Cdd:cd18048   7 QRDPTSPLFSVKS--FEELHLKEELLRGIYAMGFNRPSKIQENALPMMLADppQNLIAQSQSGTGKTAAFVLAMLSRVDA 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 109 VNGQVSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKncphVVVGTPGRILA-LVRSRSLNLR 187
Cdd:cd18048  85 LKLYPQCLCLSPTFELALQTGKVVEEMGKFCVGIQVIYAIRGNRPGKGTDIEAQ----IVIGTPGTVLDwCFKLRLIDVT 160

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 38372907 188 NVKHFVLDECDKMLEQLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDP 245
Cdd:cd18048 161 NISVFVLDEADVMINVQGHSDHSVRVKRSMPKECQMLLFSATFEDSVWAFAERIVPDP 218
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 46-245 1.55e-26

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: 105.96  E-value: 1.55e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  46 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILG--MDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVSVLVMCHTRE 123
Cdd:cd18047   3 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEppQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYE 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 124 LAFQISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKncphVVVGTPGRILA-LVRSRSLNLRNVKHFVLDECDKMLE 202
Cdd:cd18047  83 LALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ----IVIGTPGTVLDwCSKLKFIDPKKIKVFVLDEADVMIA 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 38372907 203 QLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDP 245
Cdd:cd18047 159 TQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP 201
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 55-249 4.44e-26

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: 104.47  E-value: 4.44e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLA----TLQQIEPVNGQV--SVLVMCHTRELAFQI 128
Cdd:cd17958   1 IMKEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPgfihLDLQPIPREQRNgpGVLVLTPTRELALQI 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 129 SKEYERFSkYMPSVKVSVFFGGLSIKKDEDVLKKncPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMleqLDMRR 208
Cdd:cd17958  81 EAECSKYS-YKGLKSVCVYGGGNRNEQIEDLSKG--VDIIIATPGRLNDLQMNNVINLKSITYLVLDEADRM---LDMGF 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 38372907 209 DVQ--EIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEVF 249
Cdd:cd17958 155 EPQirKILLDIRPDRQTIMTSATWPDGVRRLAQSYLKDPMIVY 197
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 63-239 6.21e-26

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: 104.20  E-value: 6.21e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  63 GFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVS------VLVMCHTRELAFQISKEYERFS 136
Cdd:cd17949  10 GIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQRLLSLEPRVDrsdgtlALVLVPTRELALQIYEVLEKLL 89

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 137 KYMPSVKVSVFFGGLSIKKDEDVLKKNCPhVVVGTPGRILALVRS-RSLNLRNVKHFVLDECDKMLEQ------------ 203
Cdd:cd17949  90 KPFHWIVPGYLIGGEKRKSEKARLRKGVN-ILIATPGRLLDHLKNtQSFDVSNLRWLVLDEADRLLDMgfekditkilel 168

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 38372907 204 LDMRRDVQEIFRLTPHEKQCMMFSATLSKeirPVCR 239
Cdd:cd17949 169 LDDKRSKAGGEKSKPSRRQTVLVSATLTD---GVKR 201
HELICc smart00490
helicase superfamily c-terminal domain;
302-381 7.30e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 91.89  E-value: 7.30e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907    302 LAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFG 381
Cdd:smart00490   3 LAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 81-247 5.16e-22

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: 93.37  E-value: 5.16e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  81 GMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVS------VLVMCHTRELAFQISKEYERFSKympSVKVSVFFGGLSIK 154
Cdd:cd17944  27 GKDLIAQARTGTGKTFSFAIPLIEKLQEDQQPRKrgrapkVLVLAPTRELANQVTKDFKDITR---KLSVACFYGGTPYQ 103

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 155 KDEDVLKkNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEqLDMRRDVQEIFRLT----PHEK-QCMMFSAT 229
Cdd:cd17944 104 QQIFAIR-NGIDILVGTPGRIKDHLQNGRLDLTKLKHVVLDEVDQMLD-MGFAEQVEEILSVSykkdSEDNpQTLLFSAT 181

                       170
                ....*....|....*...
gi 38372907 230 LSKEIRPVCRKFMQDPME 247
Cdd:cd17944 182 CPDWVYNVAKKYMKSQYE 199
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 34-248 2.08e-19

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: 87.37  E-value: 2.08e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  34 VKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI------E 107
Cdd:cd18050  52 IRGVGCPKPVFAFHQANFPQYVMDVLLDQNFKEPTPIQCQGFPLALSGRDMVGIAQTGSGKTLAYLLPAIVHInhqpylE 131

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 108 PVNGQVsVLVMCHTRELAFQISKEYERFSKyMPSVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLR 187
Cdd:cd18050 132 RGDGPI-CLVLAPTRELAQQVQQVADDYGK-SSRLKSTCIYGGAPKGPQIRDLERGV-EICIATPGRLIDFLEAGKTNLR 208

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 38372907 188 NVKHFVLDECDKMLEqLDMRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd18050 209 RCTYLVLDEADRMLD-MGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQI 268
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 55-248 3.81e-19

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: 85.83  E-value: 3.81e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI------EPVNGQVsVLVMCHTRELAFQI 128
Cdd:cd18049  35 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHInhqpflERGDGPI-CLVLAPTRELAQQV 113

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 129 SK---EYERFSKympsVKVSVFFGGLSIKKDEDVLKKNCpHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEqLD 205
Cdd:cd18049 114 QQvaaEYGRACR----LKSTCIYGGAPKGPQIRDLERGV-EICIATPGRLIDFLEAGKTNLRRCTYLVLDEADRMLD-MG 187

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 38372907 206 MRRDVQEIFRLTPHEKQCMMFSATLSKEIRPVCRKFMQDPMEV 248
Cdd:cd18049 188 FEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHI 230
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 55-202 1.19e-18

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: 84.34  E-value: 1.19e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQI--EPVNGQVS-----VLVMCHTRELAFQ 127
Cdd:cd17948   1 LVEILQRQGITKPTTVQKQGIPSILRGRNTLCAAETGSGKTLTYLLPIIQRLlrYKLLAEGPfnaprGLVITPSRELAEQ 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 38372907 128 ISKEYERFSKYMPsVKVSVFFGGL---SIKKDEDVlkknCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLE 202
Cdd:cd17948  81 IGSVAQSLTEGLG-LKVKVITGGRtkrQIRNPHFE----EVDILVATPGALSKLLTSRIYSLEQLRHLVLDEADTLLD 153
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 55-232 1.37e-16

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: 78.44  E-value: 1.37e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  55 LLRAIVDCGFEHPSEVQHECIPQAI---------LGMDVLCQAKSGMGKTAVFVLATLQQI--EPVNgQVSVLVMCHTRE 123
Cdd:cd17956   1 LLKNLQNNGITSAFPVQAAVIPWLLpsskstppyRPGDLCVSAPTGSGKTLAYVLPIVQALskRVVP-RLRALIVVPTKE 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 124 LAFQISKEYERFSKYMPSVKVSVffGGLSIKKDEDVLKKNCPH--------VVVGTPGRILA-LVRSRSLNLRNVKHFVL 194
Cdd:cd17956  80 LVQQVYKVFESLCKGTGLKVVSL--SGQKSFKKEQKLLLVDTSgrylsrvdILVATPGRLVDhLNSTPGFTLKHLRFLVI 157

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 38372907 195 DECDKMLEQ--------LDMR---------RDVQEIFRLTPHEKQC--MMFSATLSK 232
Cdd:cd17956 158 DEADRLLNQsfqdwletVMKAlgrptapdlGSFGDANLLERSVRPLqkLLFSATLTR 214
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 81-229 1.03e-14

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: 70.90  E-value: 1.03e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  81 GMDVLCQAKSGMGKTAVFVLATLQQIEPVNGQVsvLVMCHTRELAFQISKEYERFSKymPSVKVSVFFGGLSIKKDEdVL 160
Cdd:cd00046   1 GENVLITAPTGSGKTLAALLAALLLLLKKGKKV--LVLVPTKALALQTAERLRELFG--PGIRVAVLVGGSSAEERE-KN 75

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 38372907 161 KKNCPHVVVGTPGRIL-ALVRSRSLNLRNVKHFVLDECDKMLEQLD-MRRDVQEIFRLTPHEKQCMMFSAT 229
Cdd:cd00046  76 KLGDADIIIATPDMLLnLLLREDRLFLKDLKLIIVDEAHALLIDSRgALILDLAVRKAGLKNAQVILLSAT 146
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
83-427 6.24e-13

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 70.44  E-value: 6.24e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  83 DVLCQAKSGMGKT--AVFVLATLQQIEPVngqvsvLVMCHTRELAFQISKEYERFskympsvkvsvffggLSIKKDEDVL 160
Cdd:COG1061 102 RGLVVAPTGTGKTvlALALAAELLRGKRV------LVLVPRRELLEQWAEELRRF---------------LGDPLAGGGK 160

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 161 KKNCPHVVVGTPGRILALVRSRSLNlRNVKHFVLDEC--------DKMLEQLDMRrdvqeiFRL----TP-----HEKQC 223
Cdd:COG1061 161 KDSDAPITVATYQSLARRAHLDELG-DRFGLVIIDEAhhagapsyRRILEAFPAA------YRLgltaTPfrsdgREILL 233

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 224 MMF-----SATLSKEIR-PVCRKFMQDPMEVFVDDETKLTLHGLQQYYVKLKDSEKnRKLFDLLDVLEFN----QVVIFV 293
Cdd:COG1061 234 FLFdgivyEYSLKEAIEdGYLAPPEYYGIRVDLTDERAEYDALSERLREALAADAE-RKDKILRELLREHpddrKTLVFC 312

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 294 KSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFnYDMPEDSDTYLH- 372
Cdd:COG1061 313 SSVDHAEALAELLNEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAI-LLRPTGSPREFIq 391

                       330       340       350       360       370
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 38372907 373 ---RVARAGRFGTKGLAVTFVSdeNDAKILNDVQDRFEVNVAELPEEIDISTYIEQSR 427
Cdd:COG1061 392 rlgRGLRPAPGKEDALVYDFVG--NDVPVLEELAKDLRDLAGYRVEFLDEEESEELAL 447
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
266-399 6.82e-12

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


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 67.09  E-value: 6.82e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 266 VKLKDSEKNRKLFDLLDVLEFNQVVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILVATNL 345
Cdd:COG0514 210 VPKPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKVEELAEWLREAGIRAAAYHAGLDAEEREANQDRFLRDEVDVIVATIA 289

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....
gi 38372907 346 FGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAVTFVSDEnDAKIL 399
Cdd:COG0514 290 FGMGIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPE-DVAIQ 342
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 264-381 3.61e-10

C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an evolutionarily conserved class of enzymes, dedicated to preserving genomic integrity by operating in telomere maintenance, DNA repair, and replication. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350181 [Multi-domain]  Cd Length: 134  Bit Score: 57.60  E-value: 3.61e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 264 YYVKLKDSEKNRKLFDLLDVLEFNQ--VVIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQFKDFQRRILV 341
Cdd:cd18794   6 YSVRPKDKKDEKLDLLKRIKVEHLGgsGIIYCLSRKECEQVAARLQSKGISAAAYHAGLEPSDRRDVQRKWLRDKIQVIV 85

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 38372907 342 ATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFG 381
Cdd:cd18794  86 ATVAFGMGIDKPDVRFVIHYSLPKSMESYYQESGRAGRDG 125
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 339-390 3.31e-07

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: 47.70  E-value: 3.31e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 38372907 339 ILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK-GLAVTFV 390
Cdd:cd18785  25 ILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKDeGEVILFV 77
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 88-244 4.23e-07

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: 50.84  E-value: 4.23e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  88 AKSGMGKTAVFVLATL-----QQIEPVN------------GQVSVLVMCHTRELAFQISKEYERFSKYMpSVKVSVF--- 147
Cdd:cd17965  68 AETGSGKTLAYLAPLLdylkrQEQEPFEeaeeeyesakdtGRPRSVILVPTHELVEQVYSVLKKLSHTV-KLGIKTFssg 146

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 148 FGGLSIKKDEdvLKKNCPHVVVGTPGRILALVRSRSLNLRNVKHFVLDECDKMLEQlDMRRDVQEIFRLTPHEKQCMMFS 227
Cdd:cd17965 147 FGPSYQRLQL--AFKGRIDILVTTPGKLASLAKSRPKILSRVTHLVVDEADTLFDR-SFLQDTTSIIKRAPKLKHLILCS 223

                       170
                ....*....|....*..
gi 38372907 228 ATLSKEIRPVCRKFMQD 244
Cdd:cd17965 224 ATIPKEFDKTLRKLFPD 240
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
91-197 6.58e-06

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 48.57  E-value: 6.58e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  91 GMGKTAVFVLATLQQIEPVNGQvsVLVMCHTRELAFQISKEYERFSKyMPSVKVSVFFGGLSIKKDEDVLKKNcpHVVVG 170
Cdd:COG1111  27 GLGKTAVALLVIAERLHKKGGK--VLFLAPTKPLVEQHAEFFKEALN-IPEDEIVVFTGEVSPEKRKELWEKA--RIIVA 101

                        90       100
                ....*....|....*....|....*..
gi 38372907 171 TPGRILALVRSRSLNLRNVKHFVLDEC 197
Cdd:COG1111 102 TPQVIENDLIAGRIDLDDVSLLIFDEA 128
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 290-389 1.08e-05

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 47.79  E-value: 1.08e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  290 VIFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERlSRYQQfkDFQR---RILVATNLFGRGMDIERVNIVFNYDMPED 366
Cdd:PRK11057 240 IIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVR-ADVQE--AFQRddlQIVVATVAFGMGINKPNVRFVVHFDIPRN 316

                         90       100
                 ....*....|....*....|...
gi 38372907  367 SDTYLHRVARAGRFGTKGLAVTF 389
Cdd:PRK11057 317 IESYYQETGRAGRDGLPAEAMLF 339
PRK13766 PRK13766
Hef nuclease; Provisional
 85-197 2.35e-05

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 46.79  E-value: 2.35e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   85 LCQAKSGMGKTAVFVLATLQQIEPVNGQvsVLVMCHTRELAFQiskEYERFSKYM--PSVKVSVFFGGLSIKKDEDVLKK 162
Cdd:PRK13766  33 LVVLPTGLGKTAIALLVIAERLHKKGGK--VLILAPTKPLVEQ---HAEFFRKFLniPEEKIVVFTGEVSPEKRAELWEK 107

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 38372907  163 NcpHVVVGTP---------GRIlalvrsrslNLRNVKHFVLDEC 197
Cdd:PRK13766 108 A--KVIVATPqviendliaGRI---------SLEDVSLLIFDEA 140
DEXHc_dicer cd18034
DEXH-box helicase domain of endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded ...
 91-197 2.45e-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: 44.95  E-value: 2.45e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  91 GMGKTAVFVL-----ATLQQIEPVNGQVSVLvMCHTRELAFQISKEYERFSKYmpsvKVSVFFGGLSIKKDEDVLKKNCP 165
Cdd:cd18034  26 GSGKTLIAVMlikemGELNRKEKNPKKRAVF-LVPTVPLVAQQAEAIRSHTDL----KVGEYSGEMGVDKWTKERWKEEL 100

                        90       100       110
                ....*....|....*....|....*....|....*
gi 38372907 166 ---HVVVGTPGRILALVRSRSLNLRNVKHFVLDEC 197
Cdd:cd18034 101 ekyDVLVMTAQILLDALRHGFLSLSDINLLIFDEC 135
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 84-196 2.90e-05

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: 44.56  E-value: 2.90e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  84 VLCqAKSGMGKTAVFVLATLQQIEPVNGqvSVLVMCHTRELAFQISKE-YERFSKYMpsVKVSVFFGGLSIKKDEDVLkk 162
Cdd:cd17921  21 LVS-APTSSGKTLIAELAILRALATSGG--KAVYIAPTRALVNQKEADlRERFGPLG--KNVGLLTGDPSVNKLLLAE-- 93

                        90       100       110
                ....*....|....*....|....*....|....*
gi 38372907 163 ncPHVVVGTPGRILALVR-SRSLNLRNVKHFVLDE 196
Cdd:cd17921  94 --ADILVATPEKLDLLLRnGGERLIQDVRLVVVDE 126
DEXHc_RecG cd17918
DEXH/Q-box helicase domain of DEAD-like helicase RecG family proteins; The DEAD-like helicase ...
 67-200 8.63e-05

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: 43.17  E-value: 8.63e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  67 PSEVQHECIpQAILG-------MDVLCQAKSGMGKTAVFVLATLQQIEpvNGQvSVLVMCHTRELAFQIskeYERFSKYM 139
Cdd:cd17918  16 LTKDQAQAI-KDIEKdlhspepMDRLLSGDVGSGKTLVALGAALLAYK--NGK-QVAILVPTEILAHQH---YEEARKFL 88

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 38372907 140 PSVKVSVFFGGlsikKDEDVLKKncPHVVVGTPGRILALVRSRSLNLrnvkhFVLDECDKM 200
Cdd:cd17918  89 PFINVELVTGG----TKAQILSG--ISLLVGTHALLHLDVKFKNLDL-----VIVDEQHRF 138
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 235-390 2.65e-04

C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. This family includes spliceosomal Brr2 RNA helicase, ASCC3 (involved in the repair of N-alkylated nucleotides), Mtr4 (involved in processing of structured RNAs), DDX60 (involved in viral RNA degradation), and other proteins. Ski2-like RNA helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350182 [Multi-domain]  Cd Length: 154  Bit Score: 41.00  E-value: 2.65e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 235 RPVcrkfmqdPMEVFVDDETKLTLHGLQQyyVKLKDSEKNRKLFDLLDVLEFNQVVIFVKSVQRCMALAQLLVeqnfpAI 314
Cdd:cd18795   1 RPV-------PLEEYVLGFNGLGIKLRVD--VMNKFDSDIIVLLKIETVSEGKPVLVFCSSRKECEKTAKDLA-----GI 66

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 315 AIHR-GMAQEERLSRYQQFKDFQRRILVAT-------NLFGRGMDIERVNIVFNYDMPE-DSDTYLHRVARAGR--FGTK 383
Cdd:cd18795  67 AFHHaGLTREDRELVEELFREGLIKVLVATstlaagvNLPARTVIIKGTQRYDGKGYRElSPLEYLQMIGRAGRpgFDTR 146


                ....*..
gi 38372907 384 GLAVTFV 390
Cdd:cd18795 147 GEAIIMT 153
CMS1 pfam14617
U3-containing 90S pre-ribosomal complex subunit; This is a family of fungal and plant ...
 101-216 5.26e-04

U3-containing 90S pre-ribosomal complex subunit; This is a family of fungal and plant CMS1-like proteins. The family has similarity to the DEAD-box helicases.


Pssm-ID: 373164  Cd Length: 250  Bit Score: 41.39  E-value: 5.26e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907   101 ATLQQIEPVNGQVSVLVMCHTRELAFQISKEYERFSKymPSVKVSVFFGGlSIKKDEDV--LKKNCPHVVVGTPGRILAL 178
Cdd:pfam14617 113 KKLSQRPKSNGSPHTLVLTIAALRAADVLRPLKKLQT--KGFKVAKLFAK-HIKLEEHItyCKASRIGIGVGTPGRIADL 189

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 38372907   179 VRSRSLNLRNVKHFVLDEC---DKMLEQLDMRRDVQEIFRL 216
Cdd:pfam14617 190 LENESLSVDNLKYIILDASfrdIKNRGILDIRETRKAVIKF 230
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 69-196 1.16e-03

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: 40.03  E-value: 1.16e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  69 EVQHECIPqAILGMD---VLCqAKSGMGKTAVFVLATLQQIEPVN----GQVSVLVMCHTRELAFQISKEY-ERFSKymP 140
Cdd:cd18023   4 RIQSEVFP-DLLYSDknfVVS-APTGSGKTVLFELAILRLLKERNplpwGNRKVVYIAPIKALCSEKYDDWkEKFGP--L 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 38372907 141 SVKVSVFFGGLSIKKDEDVlkKNCpHVVVGTPGRILALVRSRSLN---LRNVKHFVLDE 196
Cdd:cd18023  80 GLSCAELTGDTEMDDTFEI--QDA-DIILTTPEKWDSMTRRWRDNgnlVQLVALVLIDE 135
DEXHc_Hef cd18035
DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs ...
 85-197 1.34e-03

DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. All archaea encode a protein of the XPF/MUS81/FANCM family of endonucleases. It exists in two forms: a long form, referred as Hef which consists of an N-terminal helicase fused to a C-terminal nuclease and is specific to euryarchaea and a short form, referred as XPF which lacks the helicase domain and is specific to crenarchaea and thaumarchaea. Hef has the unique feature of having both active helicase and nuclease domains. This domain configuration is highly similar with the human FANCM, a possible ortholog of archaeal Hef proteins. Hef 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: 350793 [Multi-domain]  Cd Length: 181  Bit Score: 39.42  E-value: 1.34e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  85 LCQAKSGMGKTAVFVLATLQQIEPVNGQvsVLVMCHTRELAFQiskEYERFSKYMPSV-KVSVFFGGLSIKKDEDVLKKN 163
Cdd:cd18035  20 LIVLPTGLGKTIIAILVAADRLTKKGGK--VLILAPSRPLVEQ---HAENLKRVLNIPdKITSLTGEVKPEERAERWDAS 94

                        90       100       110
                ....*....|....*....|....*....|....
gi 38372907 164 cpHVVVGTPGRILALVRSRSLNLRNVKHFVLDEC 197
Cdd:cd18035  95 --KIIVATPQVIENDLLAGRITLDDVSLLIFDEA 126
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 318-379 2.05e-03

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: 38.49  E-value: 2.05e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 38372907 318 RGMAQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGR 379
Cdd:cd18801  72 KGMSQKEQKEVIEQFRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR 133
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
 224-383 2.21e-03

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


Pssm-ID: 187770 [Multi-domain]  Cd Length: 353  Bit Score: 40.11  E-value: 2.21e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 224 MMFSATLSKEIRpvcrKFMQDpMEVFVDDETkLTLHGLQQYYVKLKDSEKNRKLFDLLDVLEF----NQVVIFVKSVQRC 299
Cdd:cd09639 158 LLMSATLPKFLK----EYAEK-IGYVEENEP-LDLKPNERAPFIKIESDKVGEISSLERLLEFikkgGSVAIIVNTVDRA 231

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907 300 MALAQLLVEQN--FPAIAIHRGMAQEERLSRYQQ----FKDFQRRILVATNLFGRGMDIErVNIVFNYDMPEDSdtYLHR 373
Cdd:cd09639 232 QEFYQQLKEKGpeEEIMLIHSRFTEKDRAKKEAEllleFKKSEKFVIVATQVIEASLDIS-VDVMITELAPIDS--LIQR 308

                       170
                ....*....|
gi 38372907 374 VARAGRFGTK 383
Cdd:cd09639 309 LGRLHRYGEK 318
SF2_C_EcoAI-like cd18799
C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family ...
 291-359 4.51e-03

C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family is composed of helicase restriction enzymes, including the HsdR subunit of restriction-modification enzymes such as Escherichia coli type I restriction enzyme EcoAI R protein (R.EcoAI). The EcoAI enzyme recognizes 5'-GAGN(7)GTCA-3'. The HsdR or R subunit is required for both nuclease and ATPase activities, but not for modification. These proteins 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: 350186 [Multi-domain]  Cd Length: 116  Bit Score: 36.77  E-value: 4.51e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 38372907 291 IFVKSVQRCMALAQLLVEQNFPAIAIHRGMAQEERLSRYQQ---FKDFQRRILVATNLFGRGMDI-ERVNIVF 359
Cdd:cd18799  11 IFCVSIEHAEFMAEAFNEAGIDAVALNSDYSDRERGDEALIllfFGELKPPILVTVDLLTTGVDIpEVDNVVF 83
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 93-231 5.18e-03

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: 37.95  E-value: 5.18e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  93 GKTAVFVLATLQQIEPVNGqVSVLVMCHTRELAF-QISKEYERFSKYMPSVKVSVFFGGLSIKKDEDVLKKNcPHVVVGT 171
Cdd:cd17923  27 GKSLCYQLPILEALLRDPG-SRALYLYPTKALAQdQLRSLRELLEQLGLGIRVATYDGDTPREERRAIIRNP-PRILLTN 104

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 38372907 172 PGRI-LALVRSRSL---NLRNVKHFVLDECD----------KMLeqldMRRdVQEIFRLTPHEKQCMMFSATLS 231
Cdd:cd17923 105 PDMLhYALLPHHDRwarFLRNLRYVVLDEAHtyrgvfgshvALL----LRR-LRRLCRRYGADPQFILTSATIG 173
DEXHc_RecG cd17992
DEXH/Q-box helicase domain of RecG; ATP-dependent DNA helicase RecG plays a critical role in ...
 82-171 7.41e-03

DEXH/Q-box helicase domain of RecG; ATP-dependent DNA helicase RecG plays a critical role in recombination and DNA repair. It is a member 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: 350750 [Multi-domain]  Cd Length: 225  Bit Score: 37.90  E-value: 7.41e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 38372907  82 MDVLCQAKSGMGKTAVFVLATLQQIEpvNG-QVSvlVMCHTRELAFQiskEYERFSKYMPSVKVSVFF--GGLSIKKDED 158
Cdd:cd17992  67 MNRLLQGDVGSGKTVVAALAMLAAVE--NGyQVA--LMAPTEILAEQ---HYDSLKKLLEPLGIRVALltGSTKAKEKRE 139

                        90
                ....*....|....*.
gi 38372907 159 VLKK---NCPHVVVGT 171
Cdd:cd17992 140 ILEKiasGEIDIVIGT 155
 
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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