NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|193787133|dbj|BAG52339|]
View 

unnamed protein product [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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HrpA super family cl34328
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
1-516 3.55e-94

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: 306.24  E-value: 3.55e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   1 MSATMELAKLSAFFGNCPIFDIPGRLYPVREKFCnligPRDRENTAYIQAIVKVTMDIhLNEMAGDILVFLTGQFEIEKS 80
Cdd:COG1643  162 MSATLDAERFARLLGDAPVIESSGRTYPVEVRYR----PLPADERDLEDAVADAVREA-LAEEPGDILVFLPGEREIRRT 236

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  81 CELLfqmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQ 160
Cdd:COG1643  237 AEAL-------------RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARI 303

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 161 LNHNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDVIR 240
Cdd:COG1643  304 PRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPED 382

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 241 FPYLDPPNERLILEALKQLYQCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSvenvfirpv 320
Cdd:COG1643  383 LPFLDPPPARAIADARALLQELGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLS--------- 453

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 321 dpeyqkeaEQRHRELAAKAggfnDFATLAVIFEQCKSsgapaswCQKHWIHWRCLFSAFRVEAQLRGLIRKLKQQsdfpk 400
Cdd:COG1643  454 --------ERDPRRGAAGS----DLLARLNLWRRLRE-------QQREFLSYLRLREWRDLARQLRRLLGEGANE----- 509

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 401 etfEGPKHEVLRRCLCAGYFKNVA-RRSVGRTFCTMDGRGspVHIHPSSALHeqetKLEWIIFHEvLVTTKVYARI--VC 477
Cdd:COG1643  510 ---EPADYEAIGLLLALAYPDRIArRRGEGGRYLLARGRG--AALFPGSPLA----KKEWLVAAE-LVGGAAEARIrlAA 579

                        490       500       510       520
                 ....*....|....*....|....*....|....*....|.
gi 193787133 478 PIRYEWVRDLLPKL--HEFNAHdlSSVARREVRedARRRWT 516
Cdd:COG1643  580 PIDPEWLEELAAHLikRYSEPH--WDKKRGRVV--ARERVR 616
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
1-516 3.55e-94

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 306.24  E-value: 3.55e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   1 MSATMELAKLSAFFGNCPIFDIPGRLYPVREKFCnligPRDRENTAYIQAIVKVTMDIhLNEMAGDILVFLTGQFEIEKS 80
Cdd:COG1643  162 MSATLDAERFARLLGDAPVIESSGRTYPVEVRYR----PLPADERDLEDAVADAVREA-LAEEPGDILVFLPGEREIRRT 236

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  81 CELLfqmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQ 160
Cdd:COG1643  237 AEAL-------------RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARI 303

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 161 LNHNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDVIR 240
Cdd:COG1643  304 PRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPED 382

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 241 FPYLDPPNERLILEALKQLYQCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSvenvfirpv 320
Cdd:COG1643  383 LPFLDPPPARAIADARALLQELGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLS--------- 453

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 321 dpeyqkeaEQRHRELAAKAggfnDFATLAVIFEQCKSsgapaswCQKHWIHWRCLFSAFRVEAQLRGLIRKLKQQsdfpk 400
Cdd:COG1643  454 --------ERDPRRGAAGS----DLLARLNLWRRLRE-------QQREFLSYLRLREWRDLARQLRRLLGEGANE----- 509

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 401 etfEGPKHEVLRRCLCAGYFKNVA-RRSVGRTFCTMDGRGspVHIHPSSALHeqetKLEWIIFHEvLVTTKVYARI--VC 477
Cdd:COG1643  510 ---EPADYEAIGLLLALAYPDRIArRRGEGGRYLLARGRG--AALFPGSPLA----KKEWLVAAE-LVGGAAEARIrlAA 579

                        490       500       510       520
                 ....*....|....*....|....*....|....*....|.
gi 193787133 478 PIRYEWVRDLLPKL--HEFNAHdlSSVARREVRedARRRWT 516
Cdd:COG1643  580 PIDPEWLEELAAHLikRYSEPH--WDKKRGRVV--ARERVR 616
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 27-201 5.82e-72

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: 227.80  E-value: 5.82e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  27 YPVREKFCNLIGPR-----DRENTAYIQAIVKVTMDIHLNEMAGDILVFLTGQFEIEKSCELLFQMAESVDydydvqdtt 101
Cdd:cd18791    1 FPVEVYYLEDILELlgissEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLREELLSPD--------- 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 102 LDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLNHNPRLGLDILEVVPISKSE 181
Cdd:cd18791   72 LGKLLVLPLHSSLPPEEQQRVFEPPPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKAS 151

                        170       180
                 ....*....|....*....|
gi 193787133 182 ALQRSGRAGRTSSGKCFRIY 201
Cdd:cd18791  152 AEQRAGRAGRTRPGKCYRLY 171
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 2-491 1.43e-57

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 208.76  E-value: 1.43e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133    2 SATMELAKLSAFFGNCPIFDIPGRLYPVREKFCNLIGPRDRENTAYIQAIVKvTMDIHLNEMAGDILVFLTGQFEIEKSC 81
Cdd:PRK11131  225 SATIDPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVEEADDTERDQLQAIFD-AVDELGREGPGDILIFMSGEREIRDTA 303

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   82 ELLFQMaesvdydyDVQDTTldgllILPCYGSMTTDQQRRIFlpPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQL 161
Cdd:PRK11131  304 DALNKL--------NLRHTE-----ILPLYARLSNSEQNRVF--QSHSGRRIVLATNVAETSLTVPGIKYVIDPGTARIS 368

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  162 NHNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSK-DFWNQcmPDHVIPEIKRTSLTSVVLTLKCLAIHDVIR 240
Cdd:PRK11131  369 RYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEdDFLSR--PEFTDPEILRTNLASVILQMTALGLGDIAA 446

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  241 FPYLDPPNERLILEALKQLYQCDAI--DRSGHVTRL---GLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENV 315
Cdd:PRK11131  447 FPFVEAPDKRNIQDGVRLLEELGAIttDEQASAYKLtplGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDP 526

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  316 FIRPVDPeyQKEAEQRHRELAAKAGGFNDFATL-AVIFEQCK--SSGAPASWCQKHWIHWrclfsaFRVE------AQLR 386
Cdd:PRK11131  527 RERPMDK--QQASDEKHRRFADKESDFLAFVNLwNYLQEQQKalSSNQFRRLCRTDYLNY------LRVRewqdiyTQLR 598

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  387 GLIRKLkqqsDFPKETFEGPKHEVlRRCLCAGYFKNVARRSVGRTFCTmDGRGSPVHIHPSSALHEQETKleWIIFHEVL 466
Cdd:PRK11131  599 QVVKEL----GIPVNSEPAEYREI-HTALLTGLLSHIGMKDAEKQEYT-GARNARFSIFPGSGLFKKPPK--WVMVAELV 670

                         490       500
                  ....*....|....*....|....*
gi 193787133  467 VTTKVYARIVCPIRYEWVRDLLPKL 491
Cdd:PRK11131  671 ETSRLWGRIAARIEPEWIEPLAQHL 695
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 255-339 5.32e-19

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: 82.29  E-value: 5.32e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  255 ALKQLYQCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRPVDPEYQKEAEQRHRE 334
Cdd:pfam04408   1 ALELLYYLGALDEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNFLDPRSAAKAARRR 80


                  ....*
gi 193787133  335 LAAKA 339
Cdd:pfam04408  81 RRAAD 85
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 261-349 2.57e-17

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: 76.92  E-value: 2.57e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   261 QCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRpvdpEYQKEAEQRHRELAAKAG 340
Cdd:smart00847   1 ELGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGDPRPK----EKREDADAARRRFADPES 76


                   ....*....
gi 193787133   341 gfnDFATLA 349
Cdd:smart00847  77 ---DHLTLL 82
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
1-516 3.55e-94

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 306.24  E-value: 3.55e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   1 MSATMELAKLSAFFGNCPIFDIPGRLYPVREKFCnligPRDRENTAYIQAIVKVTMDIhLNEMAGDILVFLTGQFEIEKS 80
Cdd:COG1643  162 MSATLDAERFARLLGDAPVIESSGRTYPVEVRYR----PLPADERDLEDAVADAVREA-LAEEPGDILVFLPGEREIRRT 236

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  81 CELLfqmaesvdydydvQDTTLDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQ 160
Cdd:COG1643  237 AEAL-------------RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARI 303

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 161 LNHNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDVIR 240
Cdd:COG1643  304 PRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPED 382

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 241 FPYLDPPNERLILEALKQLYQCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSvenvfirpv 320
Cdd:COG1643  383 LPFLDPPPARAIADARALLQELGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLS--------- 453

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 321 dpeyqkeaEQRHRELAAKAggfnDFATLAVIFEQCKSsgapaswCQKHWIHWRCLFSAFRVEAQLRGLIRKLKQQsdfpk 400
Cdd:COG1643  454 --------ERDPRRGAAGS----DLLARLNLWRRLRE-------QQREFLSYLRLREWRDLARQLRRLLGEGANE----- 509

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 401 etfEGPKHEVLRRCLCAGYFKNVA-RRSVGRTFCTMDGRGspVHIHPSSALHeqetKLEWIIFHEvLVTTKVYARI--VC 477
Cdd:COG1643  510 ---EPADYEAIGLLLALAYPDRIArRRGEGGRYLLARGRG--AALFPGSPLA----KKEWLVAAE-LVGGAAEARIrlAA 579

                        490       500       510       520
                 ....*....|....*....|....*....|....*....|.
gi 193787133 478 PIRYEWVRDLLPKL--HEFNAHdlSSVARREVRedARRRWT 516
Cdd:COG1643  580 PIDPEWLEELAAHLikRYSEPH--WDKKRGRVV--ARERVR 616
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 27-201 5.82e-72

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: 227.80  E-value: 5.82e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  27 YPVREKFCNLIGPR-----DRENTAYIQAIVKVTMDIHLNEMAGDILVFLTGQFEIEKSCELLFQMAESVDydydvqdtt 101
Cdd:cd18791    1 FPVEVYYLEDILELlgissEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLREELLSPD--------- 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 102 LDGLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQLNHNPRLGLDILEVVPISKSE 181
Cdd:cd18791   72 LGKLLVLPLHSSLPPEEQQRVFEPPPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKAS 151

                        170       180
                 ....*....|....*....|
gi 193787133 182 ALQRSGRAGRTSSGKCFRIY 201
Cdd:cd18791  152 AEQRAGRAGRTRPGKCYRLY 171
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 2-491 1.43e-57

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 208.76  E-value: 1.43e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133    2 SATMELAKLSAFFGNCPIFDIPGRLYPVREKFCNLIGPRDRENTAYIQAIVKvTMDIHLNEMAGDILVFLTGQFEIEKSC 81
Cdd:PRK11131  225 SATIDPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVEEADDTERDQLQAIFD-AVDELGREGPGDILIFMSGEREIRDTA 303

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   82 ELLFQMaesvdydyDVQDTTldgllILPCYGSMTTDQQRRIFlpPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQL 161
Cdd:PRK11131  304 DALNKL--------NLRHTE-----ILPLYARLSNSEQNRVF--QSHSGRRIVLATNVAETSLTVPGIKYVIDPGTARIS 368

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  162 NHNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSK-DFWNQcmPDHVIPEIKRTSLTSVVLTLKCLAIHDVIR 240
Cdd:PRK11131  369 RYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEdDFLSR--PEFTDPEILRTNLASVILQMTALGLGDIAA 446

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  241 FPYLDPPNERLILEALKQLYQCDAI--DRSGHVTRL---GLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENV 315
Cdd:PRK11131  447 FPFVEAPDKRNIQDGVRLLEELGAIttDEQASAYKLtplGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDP 526

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  316 FIRPVDPeyQKEAEQRHRELAAKAGGFNDFATL-AVIFEQCK--SSGAPASWCQKHWIHWrclfsaFRVE------AQLR 386
Cdd:PRK11131  527 RERPMDK--QQASDEKHRRFADKESDFLAFVNLwNYLQEQQKalSSNQFRRLCRTDYLNY------LRVRewqdiyTQLR 598

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  387 GLIRKLkqqsDFPKETFEGPKHEVlRRCLCAGYFKNVARRSVGRTFCTmDGRGSPVHIHPSSALHEQETKleWIIFHEVL 466
Cdd:PRK11131  599 QVVKEL----GIPVNSEPAEYREI-HTALLTGLLSHIGMKDAEKQEYT-GARNARFSIFPGSGLFKKPPK--WVMVAELV 670

                         490       500
                  ....*....|....*....|....*
gi 193787133  467 VTTKVYARIVCPIRYEWVRDLLPKL 491
Cdd:PRK11131  671 ETSRLWGRIAARIEPEWIEPLAQHL 695
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
 1-340 5.61e-46

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 173.19  E-value: 5.61e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   1 MSATMELAKLSAFFGNCPIFDIPGRLYPVREKFCNLiGPRDRENTAYIQAIVKVtmdihLNEMAGDILVFLTGQFEIEKS 80
Cdd:PRK11664 155 MSATLDNDRLQQLLPDAPVIVSEGRSFPVERRYQPL-PAHQRFDEAVARATAEL-----LRQESGSLLLFLPGVGEIQRV 228

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  81 CELLfqmAESVDYDYDvqdttldgllILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFVKQ 160
Cdd:PRK11664 229 QEQL---ASRVASDVL----------LCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERV 295

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 161 LNHNPRLGLDILEVVPISKSEALQRSGRAGRTSSGKCFRIYSKDFWNQcMPDHVIPEIKRTSLTSVVLTLKCLAIHDVIR 240
Cdd:PRK11664 296 ARFDPKTGLTRLVTQRISQASMTQRAGRAGRLEPGICLHLYSKEQAER-AAAQSEPEILHSDLSGLLLELLQWGCHDPAQ 374

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133 241 FPYLDPPNERLILEALKQLYQCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDceDLLLPIAAML---------- 310
Cdd:PRK11664 375 LSWLDQPPAAALAAAKRLLQQLGALDGQGRLTARGRKMAALGNDPRLAAMLVAAKEDD--EAALATAAKLaaileepprs 452

                        330       340       350
                 ....*....|....*....|....*....|...
gi 193787133 311 ---SVENVFIRPvDPEYQKEAEQRHRELAAKAG 340
Cdd:PRK11664 453 gssDLGVALSRK-QPHWQQRAQQLLKRLNVRGG 484
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 255-339 5.32e-19

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: 82.29  E-value: 5.32e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  255 ALKQLYQCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRPVDPEYQKEAEQRHRE 334
Cdd:pfam04408   1 ALELLYYLGALDEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNFLDPRSAAKAARRR 80


                  ....*
gi 193787133  335 LAAKA 339
Cdd:pfam04408  81 RRAAD 85
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 411-491 8.25e-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: 81.14  E-value: 8.25e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  411 LRRCLCAGYFKNVARR-SVGRTFCTMDGrGSPVHIHPSSAL-HEQETKLEWIIFHEVLVTTKVYARIVCPIRYEWVRDLL 488
Cdd:pfam07717   1 LRAALAAGLYPNVARRdPKGKGYTTLSD-NQRVFIHPSSVLfNEKTFPPEWVVYQELVETTKVYIRTVTAISPEWLLLFA 79


                  ...
gi 193787133  489 PKL 491
Cdd:pfam07717  80 PHI 82
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 261-349 2.57e-17

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: 76.92  E-value: 2.57e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   261 QCDAIDRSGHVTRLGLSMVEFPLPPHLTCAVIKAASLDCEDLLLPIAAMLSVENVFIRpvdpEYQKEAEQRHRELAAKAG 340
Cdd:smart00847   1 ELGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGDPRPK----EKREDADAARRRFADPES 76


                   ....*....
gi 193787133   341 gfnDFATLA 349
Cdd:smart00847  77 ---DHLTLL 82
HELICc smart00490
helicase superfamily c-terminal domain;
104-191 2.70e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 59.53  E-value: 2.70e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   104 GLLILPCYGSMTTDQQRRIFLPPPPGIRKCVISTNISATSLTIDGIRYVVDGGFvkqlnhnprlgldilevvPISKSEAL 183
Cdd:smart00490  11 GIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL------------------PWSPASYI 72


                   ....*...
gi 193787133   184 QRSGRAGR 191
Cdd:smart00490  73 QRIGRAGR 80
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 52-191 4.38e-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: 4.38e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133   52 VKVTMDIHLNEMAGDILVFLTGQFEIEksCELLFQmaesvdydydvqdttLDGLLILPCYGSMTTDQQRRIFLPPPPGIR 131
Cdd:pfam00271   3 LEALLELLKKERGGKVLIFSQTKKTLE--AELLLE---------------KEGIKVARLHGDLSQEEREEILEDFRKGKI 65

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 193787133  132 KCVISTNISATSLTIDGIRYVVDGGFvkqlnhnprlgldilevvPISKSEALQRSGRAGR 191
Cdd:pfam00271  66 DVLVATDVAERGLDLPDVDLVINYDL------------------PWNPASYIQRIGRAGR 107
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
 1-22 1.93e-06

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: 48.31  E-value: 1.93e-06
                         10        20
                 ....*....|....*....|..
gi 193787133   1 MSATMELAKLSAFFGNCPIFDI 22
Cdd:cd17984  157 MSATLELAKLSAFFGNCPVFDI 178
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 1-22 3.81e-04

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: 41.29  E-value: 3.81e-04
                         10        20
                 ....*....|....*....|..
gi 193787133   1 MSATMELAKLSAFFGNCPIFDI 22
Cdd:cd17917  138 MSATLDAEKFSSYFGGAPVIHI 159
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH