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Conserved domains on  [gi|578831405|ref|XP_006722146|]
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probable ATP-dependent RNA helicase DHX40 isoform X1 [Homo sapiens]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 1000776)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; similar to ATP-dependent RNA helicase that is involved in translation initiation

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
HrpA super family cl34328
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
51-697 3.36e-146

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


The actual alignment was detected with superfamily member COG1643:

Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 448.38  E-value: 3.36e-146
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  51 PTFPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKV 130
Cdd:COG1643    8 PDLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETV 87
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 131 GYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLfQEKSpnRkEHLKVVVMS 210
Cdd:COG1643   88 GYRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDL-QPAL--R-PDLKLLVMS 163
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 211 ATMELAKLSAFFGNCPIFDIPGRLYPVREKFCnligPRDRENTAYIQAIVKVTMDIhLNEMAGDILVFLTGQFEIEKSCE 290
Cdd:COG1643  164 ATLDAERFARLLGDAPVIESSGRTYPVEVRYR----PLPADERDLEDAVADAVREA-LAEEPGDILVFLPGEREIRRTAE 238
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 291 LLfqmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLN 370
Cdd:COG1643  239 AL-------------RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPR 305
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 371 HNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDV---- 446
Cdd:COG1643  306 YDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPedlp 384
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 447 ---------IR--------------SGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSvenvfirpvdp 503
Cdd:COG1643  385 fldppparaIAdarallqelgaldaDGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLS----------- 453
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 504 eyqkeaEQRHRELAAKAggfnDFATLAVIFEQCKSsgapaswCQKHWIHWRCLFSAFRVEAQLRELIRKLKQQsdfpket 583
Cdd:COG1643  454 ------ERDPRRGAAGS----DLLARLNLWRRLRE-------QQREFLSYLRLREWRDLARQLRRLLGEGANE------- 509
                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 584 fEGPKHEVLRRCLCAGYFKNVA-RRSVGRTFCTMDGRGspVHIHPSSALHeqetKLEWIIFHEvLVTTKVYARI--VCPI 660
Cdd:COG1643  510 -EPADYEAIGLLLALAYPDRIArRRGEGGRYLLARGRG--AALFPGSPLA----KKEWLVAAE-LVGGAAEARIrlAAPI 581
                        650       660       670
                 ....*....|....*....|....*....|....*....
gi 578831405 661 RYEWVRDLLPKL--HEFNAHdlSSVARREVRedARRRWT 697
Cdd:COG1643  582 DPEWLEELAAHLikRYSEPH--WDKKRGRVV--ARERVR 616
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
51-697 3.36e-146

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 448.38  E-value: 3.36e-146
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  51 PTFPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKV 130
Cdd:COG1643    8 PDLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETV 87
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 131 GYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLfQEKSpnRkEHLKVVVMS 210
Cdd:COG1643   88 GYRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDL-QPAL--R-PDLKLLVMS 163
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 211 ATMELAKLSAFFGNCPIFDIPGRLYPVREKFCnligPRDRENTAYIQAIVKVTMDIhLNEMAGDILVFLTGQFEIEKSCE 290
Cdd:COG1643  164 ATLDAERFARLLGDAPVIESSGRTYPVEVRYR----PLPADERDLEDAVADAVREA-LAEEPGDILVFLPGEREIRRTAE 238
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 291 LLfqmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLN 370
Cdd:COG1643  239 AL-------------RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPR 305
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 371 HNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDV---- 446
Cdd:COG1643  306 YDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPedlp 384
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 447 ---------IR--------------SGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSvenvfirpvdp 503
Cdd:COG1643  385 fldppparaIAdarallqelgaldaDGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLS----------- 453
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 504 eyqkeaEQRHRELAAKAggfnDFATLAVIFEQCKSsgapaswCQKHWIHWRCLFSAFRVEAQLRELIRKLKQQsdfpket 583
Cdd:COG1643  454 ------ERDPRRGAAGS----DLLARLNLWRRLRE-------QQREFLSYLRLREWRDLARQLRRLLGEGANE------- 509
                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 584 fEGPKHEVLRRCLCAGYFKNVA-RRSVGRTFCTMDGRGspVHIHPSSALHeqetKLEWIIFHEvLVTTKVYARI--VCPI 660
Cdd:COG1643  510 -EPADYEAIGLLLALAYPDRIArRRGEGGRYLLARGRG--AALFPGSPLA----KKEWLVAAE-LVGGAAEARIrlAAPI 581
                        650       660       670
                 ....*....|....*....|....*....|....*....
gi 578831405 661 RYEWVRDLLPKL--HEFNAHdlSSVARREVRedARRRWT 697
Cdd:COG1643  582 DPEWLEELAAHLikRYSEPH--WDKKRGRVV--ARERVR 616
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
53-230 3.74e-121

DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to 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: 350742 [Multi-domain]  Cd Length: 178  Bit Score: 360.32  E-value: 3.74e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  53 FPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGY 132
Cdd:cd17984    1 LPIQKQRKKLVQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRRVAAISVAQRVAEEMKCTLGSKVGY 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 133 QVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSPNRKEHLKVVVMSAT 212
Cdd:cd17984   81 QVRFDDCSSKETAIKYMTDGCLLRHILADPNLTKYSVIILDEAHERSLTTDILFGLLKKLFQEKSPNRKEHLKVVVMSAT 160
                        170
                 ....*....|....*...
gi 578831405 213 MELAKLSAFFGNCPIFDI 230
Cdd:cd17984  161 LELAKLSAFFGNCPVFDI 178
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
54-678 6.14e-117

RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. The HrpA/B homolog from Borrelia is 500 amino acids shorter but appears to be derived from HrpA rather than HrpB. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273900 [Multi-domain]  Cd Length: 1283  Bit Score: 381.81  E-value: 6.14e-117
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405    54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQ 133
Cdd:TIGR01967   67 PVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYK 146
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   134 VRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSATM 213
Cdd:TIGR01967  147 VRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLP-----RRPDLKIIITSATI 221
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   214 ELAKLSAFFGNCPIFDIPGRLYPVREKFCNLIGPRDRENTAYIQAIVKvTMDIHLNEMAGDILVFLTGQFEIEKSCELLf 293
Cdd:TIGR01967  222 DPERFSRHFNNAPIIEVSGRTYPVEVRYRPLVEEQEDDDLDQLEAILD-AVDELFAEGPGDILIFLPGEREIRDAAEIL- 299
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   294 qmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPgiRKCVISTNISATSLTIDGIRYVVDGGFVKQLNHNP 373
Cdd:TIGR01967  300 ------------RKRNLRHTEILPLYARLSNKEQQRVFQPHSG--RRIVLATNVAETSLTVPGIHYVIDTGTARISRYSY 365
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   374 RLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDV------- 446
Cdd:TIGR01967  366 RTKVQRLPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFNS-RPEFTDPEILRTNLASVILQMLALRLGDIaafpfie 444
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   447 ------IRSG-----------------HVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRPvdP 503
Cdd:TIGR01967  445 apdpraIRDGfrlleelgaldddeaepQLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSIQDPRERP--M 522
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   504 EYQKEAEQRHRELAAKAGGFNDFATLAVIFE---QCKSSGAPASWCQKHWIH------WRCLFSafrveaQLRELIRKLK 574
Cdd:TIGR01967  523 EKQQAADQAHARFKDPRSDFLSRVNLWRHIEeqrQALSANQFRNACRKQYLNylrvreWQDIYR------QLTQVVKELG 596
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   575 -QQSDFPKEtfegpkHEVLRRCLCAGYFKNVARRSVGRTFctmDG-RGSPVHIHPSSALHEQETKleWIIFHEVLVTTKV 652
Cdd:TIGR01967  597 lKLNEEPAD------YDAIHKALLSGLLSQIGMKDEKHEY---DGaRGRKFHIFPGSPLFKKPPK--WVMAAELVETSKL 665
                          650       660
                   ....*....|....*....|....*....
gi 578831405   653 YARIVCPIRYEWVRDLLPKL---HEFNAH 678
Cdd:TIGR01967  666 YARLVAKIEPEWVEPVAGHLikkNYFEPH 694
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
51-672 8.26e-109

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 359.76  E-value: 8.26e-109
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   51 PTFPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKV 130
Cdd:PRK11131   71 ENLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGCV 150
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  131 GYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFqeksPNRKEhLKVVVMS 210
Cdd:PRK11131  151 GYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELL----PRRPD-LKVIITS 225
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  211 ATMELAKLSAFFGNCPIFDIPGRLYPVREKFCNLIGPRDRENTAYIQAIVKvTMDIHLNEMAGDILVFLTGQFEIEKSCE 290
Cdd:PRK11131  226 ATIDPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVEEADDTERDQLQAIFD-AVDELGREGPGDILIFMSGEREIRDTAD 304
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  291 LLFQMaesvdydyDVQDTTldgllILPCYGSMTTDQQRRIFlpPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLN 370
Cdd:PRK11131  305 ALNKL--------NLRHTE-----ILPLYARLSNSEQNRVF--QSHSGRRIVLATNVAETSLTVPGIKYVIDPGTARISR 369
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  371 HNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSK-DFWNQcmPDHVIPEIKRTSLTSVVLTLKCLA------- 442
Cdd:PRK11131  370 YSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEdDFLSR--PEFTDPEILRTNLASVILQMTALGlgdiaaf 447
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  443 ----------IHDVIR------------SGHVTRL---GLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVF 497
Cdd:PRK11131  448 pfveapdkrnIQDGVRlleelgaittdeQASAYKLtplGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDPR 527
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  498 IRPVDPeyQKEAEQRHRELAAKAGGFNDFATL-AVIFEQCK--SSGAPASWCQKHWIHWrclfsaFRVE------AQLRE 568
Cdd:PRK11131  528 ERPMDK--QQASDEKHRRFADKESDFLAFVNLwNYLQEQQKalSSNQFRRLCRTDYLNY------LRVRewqdiyTQLRQ 599
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  569 LIRKLkqqsDFPKETFEGPKHEVlRRCLCAGYFKNVARRSVGRTFCTmDGRGSPVHIHPSSALHEQETKleWIIFHEVLV 648
Cdd:PRK11131  600 VVKEL----GIPVNSEPAEYREI-HTALLTGLLSHIGMKDAEKQEYT-GARNARFSIFPGSGLFKKPPK--WVMVAELVE 671
                         650       660
                  ....*....|....*....|....
gi 578831405  649 TTKVYARIVCPIRYEWVRDLLPKL 672
Cdd:PRK11131  672 TSRLWGRIAARIEPEWIEPLAQHL 695
DEXDc smart00487
DEAD-like helicases superfamily;
48-236 7.45e-26

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 105.65  E-value: 7.45e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405    48 GTTPTFPIQKQ-RKKIIQAVRDnsfLIVTGNTGSGKTTQLPKYLYEAGFSQ-HGMIGVTQPRKVAAISVAQRVAEEMKCT 125
Cdd:smart00487   5 GFEPLRPYQKEaIEALLSGLRD---VILAAPTGSGKTLAALLPALEALKRGkGGRVLVLVPTRELAEQWAEELKKLGPSL 81
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   126 LGSKVGY------QVRFDDCSSKETAIKYMTDGCLLKHILGDP-NLTKFSVIILDEAHERT--LTTDILFGLLKKLfqek 196
Cdd:smart00487  82 GLKVVGLyggdskREQLRKLESGKTDILVTTPGRLLDLLENDKlSLSNVDLVILDEAHRLLdgGFGDQLEKLLKLL---- 157
                          170       180       190       200
                   ....*....|....*....|....*....|....*....|..
gi 578831405   197 spnrKEHLKVVVMSATM--ELAKLSAFFGNCPIFDIPGRLYP 236
Cdd:smart00487 158 ----PKNVQLLLLSATPpeEIENLLELFLNDPVFIDVGFTPL 195
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
592-672 7.41e-19

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 81.53  E-value: 7.41e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  592 LRRCLCAGYFKNVARR-SVGRTFCTMDGrGSPVHIHPSSAL-HEQETKLEWIIFHEVLVTTKVYARIVCPIRYEWVRDLL 669
Cdd:pfam07717   1 LRAALAAGLYPNVARRdPKGKGYTTLSD-NQRVFIHPSSVLfNEKTFPPEWVVYQELVETTKVYIRTVTAISPEWLLLFA 79

                  ...
gi 578831405  670 PKL 672
Cdd:pfam07717  80 PHI 82
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
51-697 3.36e-146

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 448.38  E-value: 3.36e-146
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  51 PTFPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKV 130
Cdd:COG1643    8 PDLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETV 87
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 131 GYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLfQEKSpnRkEHLKVVVMS 210
Cdd:COG1643   88 GYRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDL-QPAL--R-PDLKLLVMS 163
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 211 ATMELAKLSAFFGNCPIFDIPGRLYPVREKFCnligPRDRENTAYIQAIVKVTMDIhLNEMAGDILVFLTGQFEIEKSCE 290
Cdd:COG1643  164 ATLDAERFARLLGDAPVIESSGRTYPVEVRYR----PLPADERDLEDAVADAVREA-LAEEPGDILVFLPGEREIRRTAE 238
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 291 LLfqmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLN 370
Cdd:COG1643  239 AL-------------RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPR 305
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 371 HNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDV---- 446
Cdd:COG1643  306 YDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPedlp 384
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 447 ---------IR--------------SGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSvenvfirpvdp 503
Cdd:COG1643  385 fldppparaIAdarallqelgaldaDGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLS----------- 453
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 504 eyqkeaEQRHRELAAKAggfnDFATLAVIFEQCKSsgapaswCQKHWIHWRCLFSAFRVEAQLRELIRKLKQQsdfpket 583
Cdd:COG1643  454 ------ERDPRRGAAGS----DLLARLNLWRRLRE-------QQREFLSYLRLREWRDLARQLRRLLGEGANE------- 509
                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 584 fEGPKHEVLRRCLCAGYFKNVA-RRSVGRTFCTMDGRGspVHIHPSSALHeqetKLEWIIFHEvLVTTKVYARI--VCPI 660
Cdd:COG1643  510 -EPADYEAIGLLLALAYPDRIArRRGEGGRYLLARGRG--AALFPGSPLA----KKEWLVAAE-LVGGAAEARIrlAAPI 581
                        650       660       670
                 ....*....|....*....|....*....|....*....
gi 578831405 661 RYEWVRDLLPKL--HEFNAHdlSSVARREVRedARRRWT 697
Cdd:COG1643  582 DPEWLEELAAHLikRYSEPH--WDKKRGRVV--ARERVR 616
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
53-230 3.74e-121

DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to 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: 350742 [Multi-domain]  Cd Length: 178  Bit Score: 360.32  E-value: 3.74e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  53 FPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGY 132
Cdd:cd17984    1 LPIQKQRKKLVQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRRVAAISVAQRVAEEMKCTLGSKVGY 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 133 QVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSPNRKEHLKVVVMSAT 212
Cdd:cd17984   81 QVRFDDCSSKETAIKYMTDGCLLRHILADPNLTKYSVIILDEAHERSLTTDILFGLLKKLFQEKSPNRKEHLKVVVMSAT 160
                        170
                 ....*....|....*...
gi 578831405 213 MELAKLSAFFGNCPIFDI 230
Cdd:cd17984  161 LELAKLSAFFGNCPVFDI 178
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
54-678 6.14e-117

RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. The HrpA/B homolog from Borrelia is 500 amino acids shorter but appears to be derived from HrpA rather than HrpB. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273900 [Multi-domain]  Cd Length: 1283  Bit Score: 381.81  E-value: 6.14e-117
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405    54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQ 133
Cdd:TIGR01967   67 PVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYK 146
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   134 VRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSATM 213
Cdd:TIGR01967  147 VRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLP-----RRPDLKIIITSATI 221
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   214 ELAKLSAFFGNCPIFDIPGRLYPVREKFCNLIGPRDRENTAYIQAIVKvTMDIHLNEMAGDILVFLTGQFEIEKSCELLf 293
Cdd:TIGR01967  222 DPERFSRHFNNAPIIEVSGRTYPVEVRYRPLVEEQEDDDLDQLEAILD-AVDELFAEGPGDILIFLPGEREIRDAAEIL- 299
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   294 qmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPgiRKCVISTNISATSLTIDGIRYVVDGGFVKQLNHNP 373
Cdd:TIGR01967  300 ------------RKRNLRHTEILPLYARLSNKEQQRVFQPHSG--RRIVLATNVAETSLTVPGIHYVIDTGTARISRYSY 365
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   374 RLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDV------- 446
Cdd:TIGR01967  366 RTKVQRLPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFNS-RPEFTDPEILRTNLASVILQMLALRLGDIaafpfie 444
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   447 ------IRSG-----------------HVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRPvdP 503
Cdd:TIGR01967  445 apdpraIRDGfrlleelgaldddeaepQLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSIQDPRERP--M 522
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   504 EYQKEAEQRHRELAAKAGGFNDFATLAVIFE---QCKSSGAPASWCQKHWIH------WRCLFSafrveaQLRELIRKLK 574
Cdd:TIGR01967  523 EKQQAADQAHARFKDPRSDFLSRVNLWRHIEeqrQALSANQFRNACRKQYLNylrvreWQDIYR------QLTQVVKELG 596
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   575 -QQSDFPKEtfegpkHEVLRRCLCAGYFKNVARRSVGRTFctmDG-RGSPVHIHPSSALHEQETKleWIIFHEVLVTTKV 652
Cdd:TIGR01967  597 lKLNEEPAD------YDAIHKALLSGLLSQIGMKDEKHEY---DGaRGRKFHIFPGSPLFKKPPK--WVMAAELVETSKL 665
                          650       660
                   ....*....|....*....|....*....
gi 578831405   653 YARIVCPIRYEWVRDLLPKL---HEFNAH 678
Cdd:TIGR01967  666 YARLVAKIEPEWVEPVAGHLikkNYFEPH 694
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
51-672 8.26e-109

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 359.76  E-value: 8.26e-109
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   51 PTFPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKV 130
Cdd:PRK11131   71 ENLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGCV 150
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  131 GYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFqeksPNRKEhLKVVVMS 210
Cdd:PRK11131  151 GYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELL----PRRPD-LKVIITS 225
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  211 ATMELAKLSAFFGNCPIFDIPGRLYPVREKFCNLIGPRDRENTAYIQAIVKvTMDIHLNEMAGDILVFLTGQFEIEKSCE 290
Cdd:PRK11131  226 ATIDPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVEEADDTERDQLQAIFD-AVDELGREGPGDILIFMSGEREIRDTAD 304
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  291 LLFQMaesvdydyDVQDTTldgllILPCYGSMTTDQQRRIFlpPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLN 370
Cdd:PRK11131  305 ALNKL--------NLRHTE-----ILPLYARLSNSEQNRVF--QSHSGRRIVLATNVAETSLTVPGIKYVIDPGTARISR 369
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  371 HNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSK-DFWNQcmPDHVIPEIKRTSLTSVVLTLKCLA------- 442
Cdd:PRK11131  370 YSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEdDFLSR--PEFTDPEILRTNLASVILQMTALGlgdiaaf 447
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  443 ----------IHDVIR------------SGHVTRL---GLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVF 497
Cdd:PRK11131  448 pfveapdkrnIQDGVRlleelgaittdeQASAYKLtplGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDPR 527
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  498 IRPVDPeyQKEAEQRHRELAAKAGGFNDFATL-AVIFEQCK--SSGAPASWCQKHWIHWrclfsaFRVE------AQLRE 568
Cdd:PRK11131  528 ERPMDK--QQASDEKHRRFADKESDFLAFVNLwNYLQEQQKalSSNQFRRLCRTDYLNY------LRVRewqdiyTQLRQ 599
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  569 LIRKLkqqsDFPKETFEGPKHEVlRRCLCAGYFKNVARRSVGRTFCTmDGRGSPVHIHPSSALHEQETKleWIIFHEVLV 648
Cdd:PRK11131  600 VVKEL----GIPVNSEPAEYREI-HTALLTGLLSHIGMKDAEKQEYT-GARNARFSIFPGSGLFKKPPK--WVMVAELVE 671
                         650       660
                  ....*....|....*....|....
gi 578831405  649 TTKVYARIVCPIRYEWVRDLLPKL 672
Cdd:PRK11131  672 TSRLWGRIAARIEPEWIEPLAQHL 695
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
69-230 1.32e-82

DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family belongs to 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: 438707 [Multi-domain]  Cd Length: 159  Bit Score: 259.70  E-value: 1.32e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  69 NSFLIVTGNTGSGKTTQLPKYLYEAGFS--QHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQVRFDDCSSKETAI 146
Cdd:cd17917    1 NQVVVIVGETGSGKTTQVPQFLLEDGLAkgGKGRIVCTQPRRIAAISVAERVAEERGEKLGEEVGYQIRFESKTSSKTRI 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 147 KYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSATMELAKLSAFFGNCP 226
Cdd:cd17917   81 KFCTDGILLRELLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLR-----KRPDLKVILMSATLDAEKFSSYFGGAP 155

                 ....
gi 578831405 227 IFDI 230
Cdd:cd17917  156 VIHI 159
DEXHc_DHX33 cd17978
DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA ...
54-230 1.83e-82

DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA polymerase I transcription of the 47S precursor rRNA. DHX33 belongs to 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: 438710 [Multi-domain]  Cd Length: 178  Bit Score: 259.98  E-value: 1.83e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQ 133
Cdd:cd17978    2 PIYSARKRLLEELRKHDTVIIIGETGSGKTTQIPQYLYEAGFARGGMIGITQPRRVAAVSVAKRVAEEMGVELGQLVGYS 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 134 VRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSPNRKEHLKVVVMSATM 213
Cdd:cd17978   82 VRFDDVTSEETRIKYMTDGMLLREAIGDPLLSKYSVIILDEAHERTVHTDVLFGLVKSAQRRRKEQKLSPLKVIIMSATL 161
                        170
                 ....*....|....*..
gi 578831405 214 ELAKLSAFFGNCPIFDI 230
Cdd:cd17978  162 DADLFSEYFNGAPVLYI 178
DEXHc_DHX8 cd17971
DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as ...
52-231 2.88e-80

DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as pre-mRNA-splicing factor ATP-dependent RNA helicase PRP22) acts late in the splicing of pre-mRNA and mediates the release of the spliced mRNA from spliceosomes. DHX8 belongs to 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: 350729 [Multi-domain]  Cd Length: 179  Bit Score: 254.33  E-value: 2.88e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  52 TFPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVG 131
Cdd:cd17971    5 SLPIYKLKEQLIQAVHDNQILVVIGETGSGKTTQITQYLAEAGYTSRGKIGCTQPRRVAAMSVAKRVAEEFGCCLGQEVG 84
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 132 YQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSA 211
Cdd:cd17971   85 YTIRFEDCTSPETVIKYMTDGMLLRECLIDPDLSQYSVIMLDEAHERTIHTDVLFGLLKKTVQ-----KRPDLKLIVTSA 159
                        170       180
                 ....*....|....*....|
gi 578831405 212 TMELAKLSAFFGNCPIFDIP 231
Cdd:cd17971  160 TLDAVKFSQYFYEAPIFTIP 179
DEXHc_DHX38 cd17983
DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as ...
54-230 1.23e-79

DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as PRP16) is involved in pre-mRNA splicing. DHX38 belongs to 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: 350741 [Multi-domain]  Cd Length: 173  Bit Score: 252.38  E-value: 1.23e-79
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQ 133
Cdd:cd17983    2 PIFAVRQELLNVIRDNNVVIVVGETGSGKTTQLTQYLHEDGYTDYGMIGCTQPRRVAAMSVAKRVSEEMGVELGEEVGYA 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 134 VRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSATM 213
Cdd:cd17983   82 IRFEDCTSENTVIKYMTDGILLRESLRDPDLDKYSAIIMDEAHERSLNTDVLFGLLREVVA-----RRRDLKLIVTSATM 156
                        170
                 ....*....|....*..
gi 578831405 214 ELAKLSAFFGNCPIFDI 230
Cdd:cd17983  157 DADKFADFFGNVPIFTI 173
DEXHc_DHX16 cd17974
DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably ...
54-230 5.11e-71

DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably involved in pre-mRNA splicing. DHX16 belongs to 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: 350732 [Multi-domain]  Cd Length: 174  Bit Score: 229.70  E-value: 5.11e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGM-IGVTQPRKVAAISVAQRVAEEMKCTLGSKVGY 132
Cdd:cd17974    2 PVYPYRDDLLAAVKEHQVLIIVGETGSGKTTQIPQYLHEAGYTKGGGkIGCTQPRRVAAMSVAARVAEEMGVKLGNEVGY 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 133 QVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLfqekSPNRKEhLKVVVMSAT 212
Cdd:cd17974   82 SIRFEDCTSEKTVLKYMTDGMLLREFLTEPDLASYSVMIIDEAHERTLHTDILFGLVKDI----ARFRPD-LKLLISSAT 156
                        170
                 ....*....|....*...
gi 578831405 213 MELAKLSAFFGNCPIFDI 230
Cdd:cd17974  157 MDAEKFSAFFDDAPIFRI 174
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
235-409 1.32e-70

C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family members 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: 350178 [Multi-domain]  Cd Length: 171  Bit Score: 228.19  E-value: 1.32e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 235 YPVREKFCNLIGPR-----DRENTAYIQAIVKVTMDIHLNEMAGDILVFLTGQFEIEKSCELLFQMAESVDydydvqdtt 309
Cdd:cd18791    1 FPVEVYYLEDILELlgissEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLREELLSPD--------- 71
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 310 LDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLNHNPRLGLDILEVVPISKSE 389
Cdd:cd18791   72 LGKLLVLPLHSSLPPEEQQRVFEPPPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKAS 151
                        170       180
                 ....*....|....*....|
gi 578831405 390 ALQRSGRAGRTSSGKCFRIY 409
Cdd:cd18791  152 AEQRAGRAGRTRPGKCYRLY 171
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
54-230 2.08e-67

DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA. DHX15 belongs to 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: 438709 [Multi-domain]  Cd Length: 187  Bit Score: 220.36  E-value: 2.08e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHG--MIGVTQPRKVAAISVAQRVAEEMKCTLGSKVG 131
Cdd:cd17973   14 PVWEQKEDFLKLLKNNQILVLVGETGSGKTTQIPQFVLDDELPHQPkkLVACTQPRRVAAMSVAQRVAEEMDVKLGEEVG 93
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 132 YQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSA 211
Cdd:cd17973   94 YSIRFEDCSSAKTILKYMTDGMLLREAMSDPLLSRYSVIILDEAHERTLATDILMGLLKEVVR-----RRPDLKLIVMSA 168
                        170
                 ....*....|....*....
gi 578831405 212 TMELAKLSAFFGNCPIFDI 230
Cdd:cd17973  169 TLDAGKFQKYFDNAPLLKV 187
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
62-446 3.80e-67

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 237.51  E-value: 3.80e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  62 IIQAVRDNSFLIVTGNTGSGKTTQLP-KYLYEAGFSqhGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQVRFDDCS 140
Cdd:PRK11664  13 LLTALKTAPQVLLKAPTGAGKSTWLPlQLLQHGGIN--GKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMRAESKV 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 141 SKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLfQEkspNRKEHLKVVVMSATMELAKLSA 220
Cdd:PRK11664  91 GPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDV-QQ---GLRDDLKLLIMSATLDNDRLQQ 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 221 FFGNCPIFDIPGRLYPVREKFCNLiGPRDRENTAYIQAIVKVtmdihLNEMAGDILVFLTGQFEIEKSCELLfqmAESVD 300
Cdd:PRK11664 167 LLPDAPVIVSEGRSFPVERRYQPL-PAHQRFDEAVARATAEL-----LRQESGSLLLFLPGVGEIQRVQEQL---ASRVA 237
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 301 YDydvqdttldgLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLNHNPRLGLDIL 380
Cdd:PRK11664 238 SD----------VLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRL 307
                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 578831405 381 EVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDV 446
Cdd:PRK11664 308 VTQRISQASMTQRAGRAGRLEPGICLHLYSKEQAER-AAAQSEPEILHSDLSGLLLELLQWGCHDP 372
DEXHc_DHX37 cd17982
DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the ...
54-231 7.37e-66

DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the human nervous system and has been linked to schizophrenia. It also negatively regulates poxviruses such as Myxoma virus. DEAH-box helicase 37 (DHX37) belongs to 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: 350740 [Multi-domain]  Cd Length: 191  Bit Score: 216.45  E-value: 7.37e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQH-----GMIGVTQPRKVAAISVAQRVAEEMKcTLGS 128
Cdd:cd17982    2 PILAEEQEIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFGSPesdnpGMIGITQPRRVAAVSMAKRVAEELN-VFGK 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 129 KVGYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLL-------KKLFqeKSPNRK 201
Cdd:cd17982   81 EVSYQIRYDSTVSENTKIKFMTDGVLLKEIQTDFLLRKYSVIIIDEAHERSVNTDILIGMLsrivplrAKLY--LQDQTV 158
                        170       180       190
                 ....*....|....*....|....*....|
gi 578831405 202 EHLKVVVMSATMelaKLSAFFGNCPIFDIP 231
Cdd:cd17982  159 KPLKLVIMSATL---RVEDFTENKLLFPRP 185
DEXHc_DHX35 cd17980
DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and ...
54-222 6.29e-63

DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and seems to be associated with risk to thyroid cancers. It also has been shown to positively regulate poxviruses, such as Myxoma virus. DEAH-box helicase 35 (DHX35) belongs to 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: 350738 [Multi-domain]  Cd Length: 185  Bit Score: 208.48  E-value: 6.29e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHG-MIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGY 132
Cdd:cd17980    2 PVFKLRNHILYLVENYQTIVIVGETGCGKSTQIPQYLAEAGWTAGGrVVGCTQPRRVAAVTVAGRVAEEMGAVLGHEVGY 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 133 QVRFDDCSSK-ETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSA 211
Cdd:cd17980   82 CIRFDDCTDPqATRIKFLTDGMLVREMMLDPLLTKYSVIMLDEAHERTLYTDILIGLLKKIQK-----KRGDLRLIVASA 156
                        170
                 ....*....|.
gi 578831405 212 TMELAKLSAFF 222
Cdd:cd17980  157 TLDAEKFRDFF 167
DEXHc_HrpA cd17989
DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA ...
54-230 2.11e-58

DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpA belongs to 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: 350747 [Multi-domain]  Cd Length: 173  Bit Score: 195.75  E-value: 2.11e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQ 133
Cdd:cd17989    2 PVSQKRDEIAKAIAENQVVIIAGETGSGKTTQLPKICLELGRGIRGLIGHTQPRRLAARSVAERIAEELKTELGGAVGYK 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 134 VRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFqeksPNRKEhLKVVVMSATM 213
Cdd:cd17989   82 VRFTDQTSDETCVKLMTDGILLAETQTDRYLRAYDTIIIDEAHERSLNIDFLLGYLKQLL----PRRPD-LKVIITSATI 156
                        170
                 ....*....|....*..
gi 578831405 214 ELAKLSAFFGNCPIFDI 230
Cdd:cd17989  157 DAERFSRHFNNAPIIEV 173
DEXHc_DHX34 cd17979
DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in ...
54-230 1.08e-49

DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in the nonsense-mediated decay (NMD), a surveillance mechanism that degrades aberrant mRNAs. DHX34 belongs to 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: 350737 [Multi-domain]  Cd Length: 170  Bit Score: 171.86  E-value: 1.08e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQhgmIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQ 133
Cdd:cd17979    2 PIAQYREKIIELLKTHQVVIVAGDTGCGKSTQVPQYLLAAGFRH---IACTQPRRIACISLAKRVAFESLNQYGSKVAYQ 78
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 134 VRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQekspnRKEHLKVVVMSATM 213
Cdd:cd17979   79 IRFERTRTLATKLLFLTEGLLLRQIQRDASLPQYNVLILDEVHERHLHGDFLLGVLRCLLR-----LRPDLKLILMSATI 153
                        170
                 ....*....|....*..
gi 578831405 214 ELAKLSAFFGNCPIFDI 230
Cdd:cd17979  154 NIELFSGYFEGAPVVQV 170
DEXHc_TDRD9 cd17988
DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also ...
54-223 1.46e-43

DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also known as HIG-1or NET54 or C14orf75) is a part of the nuclear PIWI-interacting RNA (piRNA) pathway essential for transposon silencing and male fertility TDRD9 belongs to 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: 350746 [Multi-domain]  Cd Length: 180  Bit Score: 155.35  E-value: 1.46e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGF--SQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVG 131
Cdd:cd17988    2 PIYAKREEILSLIEANSVVIIKGATGCGKTTQLPQFILDHYYkrGKYCNIVVTQPRRIAAISIARRVSQEREWTLGSLVG 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 132 YQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSpnrkEHLKVVVMSA 211
Cdd:cd17988   82 YQVGLERPASEETRLIYCTTGVLLQKLINNKTLTEYTHIILDEVHERDQELDFLLLVVRRLLRTNS----RHVKIILMSA 157
                        170
                 ....*....|..
gi 578831405 212 TMELAKLSAFFG 223
Cdd:cd17988  158 TISCKEFADYFT 169
DEXHc_DHX36 cd17981
DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as ...
54-230 3.12e-42

DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as G4-resolvase 1 or G4R1, MLE-like protein 1 and RNA helicase associated with AU-rich element or RHAU) unwinds a G4-quadruplex in human telomerase RNA. DHX36 belongs to 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: 350739 [Multi-domain]  Cd Length: 180  Bit Score: 151.53  E-value: 3.12e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLY----EAGFSQHGMIGVTQPRKVAAISVAQRVAEEM--KCTLG 127
Cdd:cd17981    2 PSYGMKQEIINMIDNNQVTVISGETGCGKTTQVTQFILddaiERGKGSSCRIVCTQPRRISAISVAERVAAERaeSCGLG 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 128 SKVGYQVRFDDCSSKETA-IKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFqekspNRKEHLKV 206
Cdd:cd17981   82 NSTGYQIRLESRKPRKQGsILYCTTGIVLQWLQSDPHLSNVSHLVLDEIHERNLQSDVLMGIVKDLL-----PFRSDLKV 156
                        170       180
                 ....*....|....*....|....
gi 578831405 207 VVMSATMELAKLSAFFGNCPIFDI 230
Cdd:cd17981  157 ILMSATLNAEKFSDYFNNCPMIHI 180
DEXHc_HrpB cd17990
DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ...
54-228 1.37e-40

DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpB belongs to 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: 438711 [Multi-domain]  Cd Length: 174  Bit Score: 146.71  E-value: 1.37e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKVGYQ 133
Cdd:cd17990    2 PIAAVLPALRAALDAGGQVVLEAPPGAGKTTRVPLALLAELWIAGGKIIVLEPRRVAARAAARRLATLLGEAPGETVGYR 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 134 VRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEkspnRKEHLKVVVMSATM 213
Cdd:cd17990   82 VRGESRVGRRTRVEVVTEGVLLRRLQRDPELSGVGAVILDEFHERSLDADLALALLLEVQQL----LRDDLRLLAMSATL 157
                        170
                 ....*....|....*
gi 578831405 214 ELAKLSAFFGNCPIF 228
Cdd:cd17990  158 DGDGLAALLPEAPVV 172
DEXHc_DHX30 cd17976
DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an ...
54-227 6.14e-40

DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an important role in the assembly of the mitochondrial large ribosomal subunit. DHX30 belongs to 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: 350734 [Multi-domain]  Cd Length: 178  Bit Score: 144.94  E-value: 6.14e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYE----AGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSK 129
Cdd:cd17976    2 PVDSHKESILSAIEQNPVVVISGDTGCGKTTRIPQFILEdyvlRGRGARCNVVITQPRRISAVSVAQRVAHELGPNLRRN 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 130 VGYQVRFDD-CSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSpnrkeHLKVVV 208
Cdd:cd17976   82 VGYQVRLESrPPPRGGALLFCTVGVLLKKLQSNPRLEGVSHVIVDEVHERDVNTDFLLILLKGVLQLNP-----ELRVVL 156
                        170
                 ....*....|....*....
gi 578831405 209 MSATMELAKLSAFFGNCPI 227
Cdd:cd17976  157 MSATGDNQRLSRYFGGCPV 175
DEXHc_DHX57 cd17985
DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the ...
54-230 8.77e-39

DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to 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: 350743 [Multi-domain]  Cd Length: 177  Bit Score: 141.90  E-value: 8.77e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGF----SQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSK 129
Cdd:cd17985    2 PAWQERETILELLEKHQVLVISGMTGCGKTTQIPQFILDNSLqgppLPVANIICTQPRRISAISVAERVAQERAERVGQS 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 130 VGYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSpnrkeHLKVVVM 209
Cdd:cd17985   82 VGYQIRLESVKSSATRLLYCTTGVLLRRLEGDPTLQGVTHVIVDEVHERTEESDFLLLVLKDLMVQRP-----DLKVILM 156
                        170       180
                 ....*....|....*....|.
gi 578831405 210 SATMELAKLSAFFGNCPIFDI 230
Cdd:cd17985  157 SATLNAELFSDYFNSCPVIHI 177
DEXHc_DHX32 cd17977
DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the ...
54-230 1.69e-38

DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to 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: 350735 [Multi-domain]  Cd Length: 176  Bit Score: 140.73  E-value: 1.69e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYE---AGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLGSKV 130
Cdd:cd17977    2 PVWEAKYEFMESLAHNQIVIVSGDAKTGKSSQIPQWCAEyclSAHYQHGVVVCTQVHKQTAVWLALRVADEMDVNIGHEV 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 131 GYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEkspnRKEhLKVVVMS 210
Cdd:cd17977   82 GYVIPFENCCTNETILRYCTDDMLLREMMSDPLLESYGVIILDDAHERTVSTDVLLGLLKDVLLS----RPE-LKLVIIT 156
                        170       180
                 ....*....|....*....|
gi 578831405 211 ATMELAKLSAFFGNCPIFDI 230
Cdd:cd17977  157 CPHLSSKLLSYYGNVPLIEV 176
DEXHc_DHX29 cd17975
DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of ...
53-230 8.52e-38

DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of the 43S pre-initiation complex involved in translation initiation of mRNAs with structured 5'-UTRs. DHX29 is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350733 [Multi-domain]  Cd Length: 183  Bit Score: 139.28  E-value: 8.52e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  53 FPIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYE-----AGFSQHGMIGVTQPRKVAAISVAQRVAEEMKCTLG 127
Cdd:cd17975    1 LPVFKHRESILETLKRHRVVVVAGETGSGKSTQVPQFLLEdlllnGGTAQKCNIVCTQPRRISAMSLATRVCEELGCESG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 128 -----SKVGYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSpnrke 202
Cdd:cd17975   81 pggknSLCGYQIRMESRTGEATRLLYCTTGVLLRKLQEDGLLSSISHIIVDEVHERSVQSDFLLIILKEILHKRS----- 155
                        170       180
                 ....*....|....*....|....*...
gi 578831405 203 HLKVVVMSATMELAKLSAFFGNCPIFDI 230
Cdd:cd17975  156 DLHLILMSATVDCEKFSSYFTHCPILRI 183
DEXHc_YTHDC2 cd17987
DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) ...
54-230 1.96e-37

DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) regulates mRNA translation and stability via binding to N6-methyladenosine, a modified RNA nucleotide enriched in the stop codons and 3' UTRs of eukaryotic messenger RNAs. YTHDC2 belongs to 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: 350745 [Multi-domain]  Cd Length: 176  Bit Score: 138.04  E-value: 1.96e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHG--MIGVTQPRKVAAISVAQRVAEEMKCTLGSKVG 131
Cdd:cd17987    2 PVFEKQEQIVRIIKENKVVLIVGETGSGKTTQIPQFLLDDCYANGIpcRIFCTQPRRLAAIAVAERVAAERGEKIGQTVG 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 132 YQVRFDDCSSKETAIKYMTDGCLLKHIL-GDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSpnrkeHLKVVVMS 210
Cdd:cd17987   82 YQIRLESRVSPKTLLTFCTNGVLLRTLMaGDSALSTVTHVIVDEVHERDRFSDFLLTKLRDILQKHP-----NLKLILSS 156
                        170       180
                 ....*....|....*....|
gi 578831405 211 ATMELAKLSAFFGNCPIFDI 230
Cdd:cd17987  157 AALDVNLFIRYFGSCPVIYI 176
DEXQc_DQX1 cd17986
DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 ...
53-230 6.55e-36

DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 (DQX1) belongs to 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: 350744 [Multi-domain]  Cd Length: 177  Bit Score: 133.48  E-value: 6.55e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  53 FPIQKQRKKIIQAVRDNS-FLIVTGNTGSGKTTQLPKYLYEAGFSQ---HGMIGVTQPRKVAAISVAQRVAEEMKCTLGS 128
Cdd:cd17986    1 LPIWAAKFTFLEQLESPSgIVLVSGEPGSGKSTQVPQWCAEFALSRgfqKGQVTVTQPHPLAARSLALRVADEMDLNLGH 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 129 KVGYQVRFDDCSSKETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEkspnRKEHLKVVV 208
Cdd:cd17986   81 EVGYSIPQEDCTGPNTILRFCWDRLLLQEMTSTPLLGAWGVVVLDEAQERSVASDSLLGLLKDVRLQ----RPELRVVVV 156
                        170       180
                 ....*....|....*....|..
gi 578831405 209 MSATMElAKLSAFFGNCPIFDI 230
Cdd:cd17986  157 TSPALE-PKLRAFWGNPPVVHV 177
DEXHc_DHX9 cd17972
DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ...
54-230 2.99e-35

DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ATP-dependent RNA helicase A or RHA and leukophysin or LKP) plays an important role in many cellular processes, including regulation of DNA replication, transcription, translation, microRNA biogenesis, RNA processing and transport, and maintenance of genomic stability. DHX9 belongs to 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: 350730 [Multi-domain]  Cd Length: 234  Bit Score: 133.81  E-value: 2.99e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  54 PIQKQRKKIIQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAgFSQHGM-----IGVTQPRKVAAISVAQRVAEEMKCTLGS 128
Cdd:cd17972   60 PVKKFREEILEAISNNPVVIIRGATGCGKTTQVPQYILDD-FIQNDRaaecnIVVTQPRRISAVSVAERVAFERGEEVGK 138
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 129 KVGYQVRFDDCSSK-ETAIKYMTDGCLLKHIlgDPNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSpnrkeHLKVV 207
Cdd:cd17972  139 SCGYSVRFESVLPRpHASILFCTVGVLLRKL--EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAYP-----DLRVI 211
                        170       180
                 ....*....|....*....|...
gi 578831405 208 VMSATMELAKLSAFFGNCPIFDI 230
Cdd:cd17972  212 LMSATIDTSMFCEYFFNCPVIEV 234
DEXDc smart00487
DEAD-like helicases superfamily;
48-236 7.45e-26

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 105.65  E-value: 7.45e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405    48 GTTPTFPIQKQ-RKKIIQAVRDnsfLIVTGNTGSGKTTQLPKYLYEAGFSQ-HGMIGVTQPRKVAAISVAQRVAEEMKCT 125
Cdd:smart00487   5 GFEPLRPYQKEaIEALLSGLRD---VILAAPTGSGKTLAALLPALEALKRGkGGRVLVLVPTRELAEQWAEELKKLGPSL 81
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   126 LGSKVGY------QVRFDDCSSKETAIKYMTDGCLLKHILGDP-NLTKFSVIILDEAHERT--LTTDILFGLLKKLfqek 196
Cdd:smart00487  82 GLKVVGLyggdskREQLRKLESGKTDILVTTPGRLLDLLENDKlSLSNVDLVILDEAHRLLdgGFGDQLEKLLKLL---- 157
                          170       180       190       200
                   ....*....|....*....|....*....|....*....|..
gi 578831405   197 spnrKEHLKVVVMSATM--ELAKLSAFFGNCPIFDIPGRLYP 236
Cdd:smart00487 158 ----PKNVQLLLLSATPpeEIENLLELFLNDPVFIDVGFTPL 195
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
592-672 7.41e-19

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 81.53  E-value: 7.41e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  592 LRRCLCAGYFKNVARR-SVGRTFCTMDGrGSPVHIHPSSAL-HEQETKLEWIIFHEVLVTTKVYARIVCPIRYEWVRDLL 669
Cdd:pfam07717   1 LRAALAAGLYPNVARRdPKGKGYTTLSD-NQRVFIHPSSVLfNEKTFPPEWVVYQELVETTKVYIRTVTAISPEWLLLFA 79

                  ...
gi 578831405  670 PKL 672
Cdd:pfam07717  80 PHI 82
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
448-530 7.81e-15

Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 214852 [Multi-domain]  Cd Length: 82  Bit Score: 69.99  E-value: 7.81e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   448 RSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRpvdpEYQKEAEQRHRELAAKAGgfnDFA 527
Cdd:smart00847   7 DDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGDPRPK----EKREDADAARRRFADPES---DHL 79

                   ...
gi 578831405   528 TLA 530
Cdd:smart00847  80 TLL 82
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
61-412 2.39e-14

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 76.94  E-value: 2.39e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  61 KIIQAVRDNSFLIVTGNTGSGKTTQLPK------YLYeAGFSQHGMIGVT-QPRKVAaISVAqRVA--EEMKCTLGSKVG 131
Cdd:PHA02653 171 KIFEAWISRKPVVLTGGTGVGKTSQVPKlllwfnYLF-GGFDNLDKIDPNfIERPIV-LSLP-RVAlvRLHSITLLKSLG 247
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 132 yqvrFDDCSSKETAIKY--MTD----------GCLLK-HILGDPNLTKFSVIILDEAHERTLTTDILFGLLKKLfqeksP 198
Cdd:PHA02653 248 ----FDEIDGSPISLKYgsIPDelintnpkpyGLVFStHKLTLNKLFDYGTVIIDEVHEHDQIGDIIIAVARKH-----I 318
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 199 NRKEHLkvVVMSATME--LAKLSAFFGNcPIF-DIPG-RLYPVREKFC-NLIGPRDR------ENTAYIQAIVKVTMDih 267
Cdd:PHA02653 319 DKIRSL--FLMTATLEddRDRIKEFFPN-PAFvHIPGgTLFPISEVYVkNKYNPKNKrayieeEKKNIVTALKKYTPP-- 393
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 268 lNEMAGDILVFLTGQfeieksCELLFQMAESVDYDYDV-----QDTTLDGLLilpcygsmttdqqRRIFLPPPPGIrkcV 342
Cdd:PHA02653 394 -KGSSGIVFVASVSQ------CEEYKKYLEKRLPIYDFyiihgKVPNIDEIL-------------EKVYSSKNPSI---I 450
                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 578831405 343 ISTNISATSLTIDGIRYVVDGG--FVKQlnhnPRLGLDILevvpISKSEALQRSGRAGRTSSGKCFRIYSKD 412
Cdd:PHA02653 451 ISTPYLESSVTIRNATHVYDTGrvYVPE----PFGGKEMF----ISKSMRTQRKGRVGRVSPGTYVYFYDLD 514
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
435-520 1.48e-13

Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 461295 [Multi-domain]  Cd Length: 104  Bit Score: 67.26  E-value: 1.48e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  435 VLTLKCL-AIHDvirSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRPVDPEYQKEAEQRH 513
Cdd:pfam04408   2 LELLYYLgALDE---DGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNFLDPRSAAKAAR 78

                  ....*..
gi 578831405  514 RELAAKA 520
Cdd:pfam04408  79 RRRRAAD 85
HELICc smart00490
helicase superfamily c-terminal domain;
312-399 3.60e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 59.53  E-value: 3.60e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   312 GLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFvkqlnhnprlgldilevvPISKSEAL 391
Cdd:smart00490  11 GIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL------------------PWSPASYI 72

                   ....*...
gi 578831405   392 QRSGRAGR 399
Cdd:smart00490  73 QRIGRAGR 80
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
69-212 7.94e-09

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: 55.10  E-value: 7.94e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  69 NSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEMKctLGSKVGYQVRFDDCSSKETAIK- 147
Cdd:cd00046    1 GENVLITAPTGSGKTLAALLAALLLLLKKGKKVLVLVPTKALALQTAERLRELFG--PGIRVAVLVGGSSAEEREKNKLg 78
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 578831405 148 -----YMTDGCLLKHILGD--PNLTKFSVIILDEAHERTLTTDILFGLLKKLFQEKSPNrkehLKVVVMSAT 212
Cdd:cd00046   79 dadiiIATPDMLLNLLLREdrLFLKDLKLIIVDEAHALLIDSRGALILDLAVRKAGLKN----AQVILLSAT 146
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
260-399 5.92e-08

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: 51.44  E-value: 5.92e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  260 VKVTMDIHLNEMAGDILVFLTGQFEIEksCELLFQmaesvdydydvqdttLDGLLILPCYGSMTTDQQRRIFLPPPPGIR 339
Cdd:pfam00271   3 LEALLELLKKERGGKVLIFSQTKKTLE--AELLLE---------------KEGIKVARLHGDLSQEEREEILEDFRKGKI 65
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  340 KCVISTNISATSLTIDGIRYVVDGGFvkqlnhnprlgldilevvPISKSEALQRSGRAGR 399
Cdd:pfam00271  66 DVLVATDVAERGLDLPDVDLVINYDL------------------PWNPASYIQRIGRAGR 107
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
54-213 2.46e-07

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: 51.09  E-value: 2.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   54 PIQKQrkkIIQAVRDNSFLIVTGNTGSGKTT--QLPkYLYEAGFSQHGMIG-VTQPRKVAAI---SVAQRVAEEMKCTLG 127
Cdd:pfam00270   2 PIQAE---AIPAILEGRDVLVQAPTGSGKTLafLLP-ALEALDKLDNGPQAlVLAPTRELAEqiyEELKKLGKGLGLKVA 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  128 SKVGYQVRFDDCSS-KETAIKYMTDGCLLKHILGDPNLTKFSVIILDEAHErtlTTDILFG-LLKKLFQEKSPNRkehlK 205
Cdd:pfam00270  78 SLLGGDSRKEQLEKlKGPDILVGTPGRLLDLLQERKLLKNLKLLVLDEAHR---LLDMGFGpDLEEILRRLPKKR----Q 150

                  ....*...
gi 578831405  206 VVVMSATM 213
Cdd:pfam00270 151 ILLLSATL 158
DEXHc_viral_Ns3 cd17931
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ...
71-176 1.09e-04

DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional protein found in pestiviruses that contains an N-terminal protease and a C-terminal helicase. The N-terminal domain is a chymotrypsin-like serine protease, which is responsible for most of the maturation cleavages of the polyprotein precursor in the cytosolic side of the endoplasmic reticulum membrane. The C-terminal domain, about two-thirds of NS3, is a helicase belonging to superfamily 2 (SF2) thought to be important for unwinding highly structured regions of the RNA genome during replication. NS3 plays an essential role in viral polyprotein processing and genome replication. NS3 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: 350689 [Multi-domain]  Cd Length: 151  Bit Score: 42.92  E-value: 1.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  71 FLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAeemkctlGSKVGYQ---VRFDDcsSKETAIK 147
Cdd:cd17931    3 LTVLDLHPGAGKTTRVLPQIIREAIKKRLRTLVLAPTRVVAAEMYEALR-------GLPIRYRtgaVKEEH--GGNEIVD 73
                         90       100
                 ....*....|....*....|....*....
gi 578831405 148 YMTDGCLLKHILGDPNLTKFSVIILDEAH 176
Cdd:cd17931   74 YMCHGTFTCRLLSPKRVPNYNLIIMDEAH 102
AAA_22 pfam13401
AAA domain;
70-218 2.45e-04

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 41.56  E-value: 2.45e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405   70 SFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRKVAAISVAQRVAEEmkctlgskvgYQVRFDDCSSKETAIKYM 149
Cdd:pfam13401   6 GILVLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDLPSGTSPKDLLRALLRA----------LGLPLSGRLSKEELLAAL 75
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 578831405  150 TDGCLLKHILGdpnltkfsVIILDEAHErtLTTDILFgLLKKLFqekspNRKEHLKVVVMSATMELAKL 218
Cdd:pfam13401  76 QQLLLALAVAV--------VLIIDEAQH--LSLEALE-ELRDLL-----NLSSKLLQLILVGTPELREL 128
HepA COG0553
Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, ...
166-291 2.95e-03

Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination, and repair];


Pssm-ID: 440319 [Multi-domain]  Cd Length: 682  Bit Score: 40.98  E-value: 2.95e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 166 KFSVIILDEAH----ERTLTTDILFGLlkklfqeKSPNRkehlkvVVMSAT-MELaKLSAFFGncpIFDI--PGRLYPV- 237
Cdd:COG0553  358 DWDLVILDEAQhiknPATKRAKAVRAL-------KARHR------LALTGTpVEN-RLEELWS---LLDFlnPGLLGSLk 420
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 578831405 238 --REKFCNLIGPRDRENTAYIQAIVKVTMdihLNEMAGDILVFLTGQFEIEKSCEL 291
Cdd:COG0553  421 afRERFARPIEKGDEEALERLRRLLRPFL---LRRTKEDVLKDLPEKTEETLYVEL 473
ABC_MutS_homologs cd03243
ATP-binding cassette domain of MutS homologs; The MutS protein initiates DNA mismatch repair ...
67-214 7.85e-03

ATP-binding cassette domain of MutS homologs; The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA structures or lesions results in ADP/ATP exchange.


Pssm-ID: 213210 [Multi-domain]  Cd Length: 202  Bit Score: 38.38  E-value: 7.85e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405  67 RDNSFLIVTGNTGSGKTTqlpkYLYEAGFSQH-GMIGVTQPrkvaaisvaqrvAEEMKCTLGSKVGYQVRFDDCSSKETA 145
Cdd:cd03243   27 GSGRLLLITGPNMGGKST----YLRSIGLAVLlAQIGCFVP------------AESASIPLVDRIFTRIGAEDSISDGRS 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578831405 146 iKYMTDGCLLKHILGdpNLTKFSVIILDEAHERTLTTD---ILFGLLKKLFQEKS----------PNRKEHLKVVVMSAT 212
Cdd:cd03243   91 -TFMAELLELKEILS--LATPRSLVLIDELGRGTSTAEglaIAYAVLEHLLEKGCrtlfathfheLADLPEQVPGVKNLH 167

                 ..
gi 578831405 213 ME 214
Cdd:cd03243  168 ME 169
 
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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