NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|767951195|ref|XP_011542942|]
View 

bifunctional 3'-5' exonuclease/ATP-dependent helicase WRN isoform X2 [Homo sapiens]

Protein Classification

recQ_fam and HTH_40 domain-containing protein( domain architecture ID 11489449)

protein containing domains recQ_fam, HRDC, and HTH_40

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
recQ_fam TIGR00614
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ...
 42-477 0e+00

ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


:

Pssm-ID: 129701 [Multi-domain]  Cd Length: 470  Bit Score: 795.51  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   42 YGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSEN----VLTDIKLGKYRIVYVTPEYCSGNM 117
Cdd:TIGR00614  37 GGKSLCYQLPALYSDGITLVISPLISLMEDQVLQLQALGIPATFLNSAQTKEqqlnVLTDLKDGKIKLLYVTPEKISASN 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  118 GLLQQLEADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGF 197
Cdd:TIGR00614 117 RLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKFPNVPVMALTATASPSVREDILRQLNLLNPQIFCTSF 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  198 DRPNLYLEVRRKTGNILQDLQPFLVKtsshwEFEGPT-IIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHR 276
Cdd:TIGR00614 197 DRPNLYYEVRRKTPKILEDLLRFIRK-----EFEGKSgIIYCPSRKKVEQVAAELQKLGLAAGAYHAGLEDSARDDVQHK 271

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  277 FVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNEKFR 356
Cdd:TIGR00614 272 FQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPADMNRLRRLLMEEPDGNFR 351

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  357 LYKLKMMAKMEKYLHSSRCRRQIILSHFEDKQVQKaSLGIMGTEKCCDNCRSRLDHCYsmDDSEDTSWDFGPQAFKLLSA 436
Cdd:TIGR00614 352 TYKLKLYEMMEYCLNSSTCRRLILLSYFGEKGFNK-SFCIMGTEKCCDNCCKRLDYKT--KDVTDKVYDFGPQAQKALSA 428

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|..
gi 767951195  437 VDILGEKFGIGLPILFLRGSNSQRLAD-QYRRHSLFGTGKDQ 477
Cdd:TIGR00614 429 VGRLNQKFGMGYPVDFLRGSNSQKIRDgGFRKHSLYGRGKDE 470
HTH_40 pfam14493
Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of ...
 725-819 9.00e-21

Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of helicase proteins.


:

Pssm-ID: 464189  Cd Length: 89  Bit Score: 87.56  E-value: 9.00e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  725 SMAITYSLFQEKkMPLKSIAESRILPLMTIGMHLSQAVKAGCPLDLERAgLTPEVQKIIADVIRNPPVNSdmskISLIRM 804
Cdd:pfam14493   1 SAEITLELYKEG-LSIEEIAEERGLKESTIEGHLAELIEAGEPVDIERL-VSEEEQKEILDAIEKLGSES----LKPIKE 74

                          90
                  ....*....|....*
gi 767951195  805 LVPENIDTYLIHMAI 819
Cdd:pfam14493  75 ALPEEISYFEIRLVL 89
HRDC smart00341
Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the ...
 623-696 5.56e-18

Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the HRDC domain cause human disease.


:

Pssm-ID: 128635 [Multi-domain]  Cd Length: 81  Bit Score: 79.26  E-value: 5.56e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767951195   623 LYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAMLAP-LLEVIKHFCQTNSVQ 696
Cdd:smart00341   7 LLRRLRQWRDEIARREDVPPYFVLPDETLIKMAAALPTNVSELLAIDGVGEEKARRYGKdLLAVIQEASDSPSEA 81
 
Name Accession Description Interval E-value
recQ_fam TIGR00614
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ...
 42-477 0e+00

ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129701 [Multi-domain]  Cd Length: 470  Bit Score: 795.51  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   42 YGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSEN----VLTDIKLGKYRIVYVTPEYCSGNM 117
Cdd:TIGR00614  37 GGKSLCYQLPALYSDGITLVISPLISLMEDQVLQLQALGIPATFLNSAQTKEqqlnVLTDLKDGKIKLLYVTPEKISASN 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  118 GLLQQLEADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGF 197
Cdd:TIGR00614 117 RLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKFPNVPVMALTATASPSVREDILRQLNLLNPQIFCTSF 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  198 DRPNLYLEVRRKTGNILQDLQPFLVKtsshwEFEGPT-IIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHR 276
Cdd:TIGR00614 197 DRPNLYYEVRRKTPKILEDLLRFIRK-----EFEGKSgIIYCPSRKKVEQVAAELQKLGLAAGAYHAGLEDSARDDVQHK 271

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  277 FVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNEKFR 356
Cdd:TIGR00614 272 FQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPADMNRLRRLLMEEPDGNFR 351

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  357 LYKLKMMAKMEKYLHSSRCRRQIILSHFEDKQVQKaSLGIMGTEKCCDNCRSRLDHCYsmDDSEDTSWDFGPQAFKLLSA 436
Cdd:TIGR00614 352 TYKLKLYEMMEYCLNSSTCRRLILLSYFGEKGFNK-SFCIMGTEKCCDNCCKRLDYKT--KDVTDKVYDFGPQAQKALSA 428

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|..
gi 767951195  437 VDILGEKFGIGLPILFLRGSNSQRLAD-QYRRHSLFGTGKDQ 477
Cdd:TIGR00614 429 VGRLNQKFGMGYPVDFLRGSNSQKIRDgGFRKHSLYGRGKDE 470
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
43-494 1.14e-165

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


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 491.58  E-value: 1.14e-165
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSEN----VLTDIKLGKYRIVYVTPEYCSgNMG 118
Cdd:COG0514   44 GKSLCYQLPALLLPGLTLVVSPLIALMKDQVDALRAAGIRAAFLNSSLSAEerreVLRALRAGELKLLYVAPERLL-NPR 122

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 119 LLQQLeADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGFD 198
Cdd:COG0514  123 FLELL-RRLKISLFAIDEAHCISQWGHDFRPDYRRLGELRERLPNVPVLALTATATPRVRADIAEQLGLEDPRVFVGSFD 201

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 199 RPNLYLEVRRKTG-NILQDLQPFLVKTSshwefEGPTIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRF 277
Cdd:COG0514  202 RPNLRLEVVPKPPdDKLAQLLDFLKEHP-----GGSGIVYCLSRKKVEELAEWLREAGIRAAAYHAGLDAEEREANQDRF 276

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 278 VRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRN-EKFR 356
Cdd:COG0514  277 LRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPEDVAIQRFFIEQSPPdEERK 356

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 357 LYKLKMMAKMEKYLHSSRCRRQIILSHFEDKQvqkaslgimgTEKC--CDNCRsrldhcysmddSEDTSWDFGPQAFKLL 434
Cdd:COG0514  357 RVERAKLDAMLAYAETTGCRRQFLLRYFGEEL----------AEPCgnCDNCL-----------GPPETFDGTEAAQKAL 415

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 767951195 435 SAVDILGEKFGIGLPILFLRGSNSQRLADQ-YRRHSLFGTGKDQTESWWKAFSRQLITEGF 494
Cdd:COG0514  416 SCVYRTGQRFGAGHVIDVLRGSKNEKIRQFgHDKLSTYGIGKDLSDKEWRSVIRQLLAQLF 476
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 43-687 2.10e-116

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 367.89  E-value: 2.10e-116
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSE----NVLTDIKLGKYRIVYVTPEYCSGNmG 118
Cdd:PRK11057  52 GKSLCYQIPALVLDGLTLVVSPLISLMKDQVDQLLANGVAAACLNSTQTReqqlEVMAGCRTGQIKLLYIAPERLMMD-N 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 119 LLQQLeADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGFD 198
Cdd:PRK11057 131 FLEHL-AHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFD 209

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 199 RPNLylevrRKTgnILQDLQPflvkTSSHWEF----EGPT-IIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDI 273
Cdd:PRK11057 210 RPNI-----RYT--LVEKFKP----LDQLMRYvqeqRGKSgIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADV 278

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 274 HHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNE 353
Cdd:PRK11057 279 QEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLEEKPAG 358

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 354 KFRLYKLKMMAKMEKYLHSSRCRRQIILSHFEDkqvqkaslgimGTEKCCDNCRSRLDHCYSMDDSEDtswdfgpqAFKL 433
Cdd:PRK11057 359 QQQDIERHKLNAMGAFAEAQTCRRLVLLNYFGE-----------GRQEPCGNCDICLDPPKQYDGLED--------AQKA 419

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 434 LSAVDILGEKFGIGLPILFLRGSNSQRLAD-QYRRHSLFGTGKDQTESWWKAFSRQLITEGFLVE-VSRYNKfmkicalt 511
Cdd:PRK11057 420 LSCIYRVNQRFGMGYVVEVLRGANNQRIRDyGHDKLKVYGIGRDKSHEHWVSVIRQLIHLGLVTQnIAQHSA-------- 491

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 512 kkgrnwlhkantesqsliLQANEELCPkklllpssktVSSGtkehcynQVPVELSTEKKSNLEKLYSYKpcdkiSSGSNI 591
Cdd:PRK11057 492 ------------------LQLTEAARP----------VLRG-------EVSLQLAVPRIVALKPRAMQK-----SFGGNY 531

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 592 SKKsimvqspekaysssqpvisaqeqetqivLYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGV 671
Cdd:PRK11057 532 DRK----------------------------LFAKLRKLRKSIADEENIPPYVVFNDATLIEMAEQMPITASEMLSVNGV 583

                        650
                 ....*....|....*..
gi 767951195 672 SEGKAAMLA-PLLEVIK 687
Cdd:PRK11057 584 GQRKLERFGkPFMALIR 600
DEXHc_RecQ3 cd18017
DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ...
 42-198 4.92e-95

DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ATP-dependent helicase or WRN) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Werner's syndrome.


Pssm-ID: 350775 [Multi-domain]  Cd Length: 193  Bit Score: 296.69  E-value: 4.92e-95
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  42 YGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSENVLTDIKLGKYRIVYVTPEYCSGNMGLLQ 121
Cdd:cd18017   39 YGKSLCYQYPSVLLNSLTLVISPLISLMEDQVLQLVMSNIPACFLGSAQSQNVLDDIKMGKIRVIYVTPEFVSKGLELLQ 118

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 767951195 122 QLEAdiGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGFD 198
Cdd:cd18017  119 QLRN--GITLIAIDEAHCVSQWGHDFRSSYRHLGSIRNRLPNVPIVALTATATPSVRDDIIKNLNLRNPQITCTSFD 193
DpdF NF041063
protein DpdF;
43-354 1.66e-34

protein DpdF;


Pssm-ID: 468990 [Multi-domain]  Cd Length: 813  Bit Score: 141.97  E-value: 1.66e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIG---LVISPLISLMEDQVLQLK-MSNIPACFLG------SAQSEN----VLTDIKLGKYRIVYV 108
Cdd:NF041063 170 GKSLVAQAPALLASRQGgltLVVVPTVALAIDQERRAReLLRRAGPDLGgplawhGGLSAEeraaIRQRIRDGTQRILFT 249

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 109 TPEycSGNMGLLQQLE--ADIG-ITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMV-----PI--VALTATASSSIR 178
Cdd:NF041063 250 SPE--SLTGSLRPALFdaAEAGlLRYLVVDEAHLVDQWGDGFRPEFQLLAGLRRSLLRLapsgrPFrtLLLSATLTESTL 327

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 179 E---------DIVRCLN---LRN-PQITCTGFDRPNLYLE-----VRRktgnilqdlqpfLVKtsshwefegPTIIYCPS 240
Cdd:NF041063 328 DtletlfgppGPFIVVSavqLRPePAYWVAKCDSEEERRErvleaLRH------------LPR---------PLILYVTK 386

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 241 RKMTQQVTGELRKLNLS-CGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEI 319
Cdd:NF041063 387 VEDAEAWLQRLRAAGFRrVALFHGDTPDAERERLIEQWRENELDIVVATSAFGLGMDKSDVRTVIHACVPETLDRFYQEV 466

                        330       340       350
                 ....*....|....*....|....*....|....*..
gi 767951195 320 GRAGRDGLQSSCHVLWAPADINLNRHLLTE--IRNEK 354
Cdd:NF041063 467 GRGGRDGKASLSLLIYTPDDLDIAKSLNRPklISVEK 503
RQC smart00956
This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix ...
 425-518 3.04e-26

This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; The RQC domain, found only in RecQ family enzymes, is a high affinity G4 DNA binding domain.


Pssm-ID: 214936 [Multi-domain]  Cd Length: 92  Bit Score: 103.32  E-value: 3.04e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   425 DFGPQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLADQ-YRRHSLFGTGKDQTESWWKAFSRQLITEGFLVEvsrYNK 503
Cdd:smart00956   1 DVTEEAQKLLSCVYRTGQRFGAGHVIDVLRGSKNKKIRQKgHDRLSTFGIGKDLSKKEWRRLIRQLIAEGYLRE---DGG 77

                           90
                   ....*....|....*
gi 767951195   504 FMKICALTKKGRNWL 518
Cdd:smart00956  78 RYPYLKLTEKARPVL 92
HTH_40 pfam14493
Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of ...
 725-819 9.00e-21

Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of helicase proteins.


Pssm-ID: 464189  Cd Length: 89  Bit Score: 87.56  E-value: 9.00e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  725 SMAITYSLFQEKkMPLKSIAESRILPLMTIGMHLSQAVKAGCPLDLERAgLTPEVQKIIADVIRNPPVNSdmskISLIRM 804
Cdd:pfam14493   1 SAEITLELYKEG-LSIEEIAEERGLKESTIEGHLAELIEAGEPVDIERL-VSEEEQKEILDAIEKLGSES----LKPIKE 74

                          90
                  ....*....|....*
gi 767951195  805 LVPENIDTYLIHMAI 819
Cdd:pfam14493  75 ALPEEISYFEIRLVL 89
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 229-326 1.66e-19

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: 84.57  E-value: 1.66e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  229 EFEGPTIIYCPSRKMTQqvTGEL-RKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYG 307
Cdd:pfam00271  13 ERGGKVLIFSQTKKTLE--AELLlEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYD 90

                          90
                  ....*....|....*....
gi 767951195  308 APKDMESYYQEIGRAGRDG 326
Cdd:pfam00271  91 LPWNPASYIQRIGRAGRAG 109
HRDC smart00341
Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the ...
 623-696 5.56e-18

Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the HRDC domain cause human disease.


Pssm-ID: 128635 [Multi-domain]  Cd Length: 81  Bit Score: 79.26  E-value: 5.56e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767951195   623 LYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAMLAP-LLEVIKHFCQTNSVQ 696
Cdd:smart00341   7 LLRRLRQWRDEIARREDVPPYFVLPDETLIKMAAALPTNVSELLAIDGVGEEKARRYGKdLLAVIQEASDSPSEA 81
HRDC pfam00570
HRDC domain; The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic ...
 620-686 6.88e-12

HRDC domain; The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding. Mutations in the HRDC domain cause human disease. It is interesting to note that the RecQ helicase in Deinococcus radiodurans has three tandem HRDC domains.


Pssm-ID: 425755 [Multi-domain]  Cd Length: 68  Bit Score: 61.40  E-value: 6.88e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 767951195  620 QIVLYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAMLAP-LLEVI 686
Cdd:pfam00570   1 QLALLKALREWRDELAREEDVPPYVIFPDKTLLEIAEKLPRTLEELLAIPGVGPRKVERYGEeILAAI 68
 
Name Accession Description Interval E-value
recQ_fam TIGR00614
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ...
 42-477 0e+00

ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129701 [Multi-domain]  Cd Length: 470  Bit Score: 795.51  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   42 YGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSEN----VLTDIKLGKYRIVYVTPEYCSGNM 117
Cdd:TIGR00614  37 GGKSLCYQLPALYSDGITLVISPLISLMEDQVLQLQALGIPATFLNSAQTKEqqlnVLTDLKDGKIKLLYVTPEKISASN 116

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  118 GLLQQLEADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGF 197
Cdd:TIGR00614 117 RLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKFPNVPVMALTATASPSVREDILRQLNLLNPQIFCTSF 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  198 DRPNLYLEVRRKTGNILQDLQPFLVKtsshwEFEGPT-IIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHR 276
Cdd:TIGR00614 197 DRPNLYYEVRRKTPKILEDLLRFIRK-----EFEGKSgIIYCPSRKKVEQVAAELQKLGLAAGAYHAGLEDSARDDVQHK 271

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  277 FVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNEKFR 356
Cdd:TIGR00614 272 FQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPADMNRLRRLLMEEPDGNFR 351

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  357 LYKLKMMAKMEKYLHSSRCRRQIILSHFEDKQVQKaSLGIMGTEKCCDNCRSRLDHCYsmDDSEDTSWDFGPQAFKLLSA 436
Cdd:TIGR00614 352 TYKLKLYEMMEYCLNSSTCRRLILLSYFGEKGFNK-SFCIMGTEKCCDNCCKRLDYKT--KDVTDKVYDFGPQAQKALSA 428

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|..
gi 767951195  437 VDILGEKFGIGLPILFLRGSNSQRLAD-QYRRHSLFGTGKDQ 477
Cdd:TIGR00614 429 VGRLNQKFGMGYPVDFLRGSNSQKIRDgGFRKHSLYGRGKDE 470
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
43-494 1.14e-165

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


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 491.58  E-value: 1.14e-165
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSEN----VLTDIKLGKYRIVYVTPEYCSgNMG 118
Cdd:COG0514   44 GKSLCYQLPALLLPGLTLVVSPLIALMKDQVDALRAAGIRAAFLNSSLSAEerreVLRALRAGELKLLYVAPERLL-NPR 122

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 119 LLQQLeADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGFD 198
Cdd:COG0514  123 FLELL-RRLKISLFAIDEAHCISQWGHDFRPDYRRLGELRERLPNVPVLALTATATPRVRADIAEQLGLEDPRVFVGSFD 201

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 199 RPNLYLEVRRKTG-NILQDLQPFLVKTSshwefEGPTIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRF 277
Cdd:COG0514  202 RPNLRLEVVPKPPdDKLAQLLDFLKEHP-----GGSGIVYCLSRKKVEELAEWLREAGIRAAAYHAGLDAEEREANQDRF 276

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 278 VRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRN-EKFR 356
Cdd:COG0514  277 LRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPEDVAIQRFFIEQSPPdEERK 356

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 357 LYKLKMMAKMEKYLHSSRCRRQIILSHFEDKQvqkaslgimgTEKC--CDNCRsrldhcysmddSEDTSWDFGPQAFKLL 434
Cdd:COG0514  357 RVERAKLDAMLAYAETTGCRRQFLLRYFGEEL----------AEPCgnCDNCL-----------GPPETFDGTEAAQKAL 415

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 767951195 435 SAVDILGEKFGIGLPILFLRGSNSQRLADQ-YRRHSLFGTGKDQTESWWKAFSRQLITEGF 494
Cdd:COG0514  416 SCVYRTGQRFGAGHVIDVLRGSKNEKIRQFgHDKLSTYGIGKDLSDKEWRSVIRQLLAQLF 476
recQ TIGR01389
ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 ...
 19-687 3.05e-133

ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273594 [Multi-domain]  Cd Length: 591  Bit Score: 411.39  E-value: 3.05e-133
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   19 GQHPMKSKLLASRCTLAI-PVLNryGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQS----EN 93
Cdd:TIGR01389  17 GQEEIISHVLDGRDVLVVmPTGG--GKSLCYQVPALLLKGLTVVISPLISLMKDQVDQLRAAGVAAAYLNSTLSakeqQD 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   94 VLTDIKLGKYRIVYVTPEycsgnmGLLQ----QLEADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVAL 169
Cdd:TIGR01389  95 IEKALVNGELKLLYVAPE------RLEQdyflNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAERFPQVPRIAL 168

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  170 TATASSSIREDIVRCLNLRNPQITCTGFDRPNLYLEVRRKTgNILQDLQPFLVKtssHWEFEGptIIYCPSRKMTQQVTG 249
Cdd:TIGR01389 169 TATADAETRQDIRELLRLADANEFITSFDRPNLRFSVVKKN-NKQKFLLDYLKK---HRGQSG--IIYASSRKKVEELAE 242

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  250 ELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQS 329
Cdd:TIGR01389 243 RLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPA 322

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  330 SCHVLWAPADINLNRHLLTEirNEKFRLYKLKMMAK---MEKYLHSSRCRRQIILSHFEDKQVqkaslgimgtEKC--CD 404
Cdd:TIGR01389 323 EAILLYSPADIALLKRRIEQ--SEADDDYKQIEREKlraMIAYCETQTCRRAYILRYFGENEV----------EPCgnCD 390

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  405 NCRsrldhcysmddSEDTSWDFGPQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLaDQYR--RHSLFGTGKDQTESWW 482
Cdd:TIGR01389 391 NCL-----------DPPKSYDATVEAQKALSCVYRMGQRFGVGYIIEVLRGSKNDKI-LQKGhdQLSTYGIGKDYTQKEW 458

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  483 KAFSRQLITEGFLVEvsrynkfmkicaltkkgrnwlhkANTESQSLILQaneelcpkklllPSSKTVSSgtkehcyNQVP 562
Cdd:TIGR01389 459 RSLIDQLIAEGLLTE-----------------------NDEIYIGLQLT------------EAARKVLK-------NEVE 496

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  563 VELSTEKKSNLEKLYSYKpcdkissgsniskksIMVQSPEKAysssqpvisaqeqetqivLYGKLVEARQKHANKMDVPP 642
Cdd:TIGR01389 497 VLLRPFKVVAKEKTRVQK---------------NLSVGVDNA------------------LFEALRELRKEQADEQNVPP 543

                         650       660       670       680
                  ....*....|....*....|....*....|....*....|....*.
gi 767951195  643 AILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAMLAP-LLEVIK 687
Cdd:TIGR01389 544 YVIFSDSTLREMAEKRPATLNALLKIKGVGQNKLDRYGEaFLEVIR 589
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 43-687 2.10e-116

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 367.89  E-value: 2.10e-116
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSE----NVLTDIKLGKYRIVYVTPEYCSGNmG 118
Cdd:PRK11057  52 GKSLCYQIPALVLDGLTLVVSPLISLMKDQVDQLLANGVAAACLNSTQTReqqlEVMAGCRTGQIKLLYIAPERLMMD-N 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 119 LLQQLeADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGFD 198
Cdd:PRK11057 131 FLEHL-AHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFD 209

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 199 RPNLylevrRKTgnILQDLQPflvkTSSHWEF----EGPT-IIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDI 273
Cdd:PRK11057 210 RPNI-----RYT--LVEKFKP----LDQLMRYvqeqRGKSgIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADV 278

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 274 HHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNE 353
Cdd:PRK11057 279 QEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLEEKPAG 358

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 354 KFRLYKLKMMAKMEKYLHSSRCRRQIILSHFEDkqvqkaslgimGTEKCCDNCRSRLDHCYSMDDSEDtswdfgpqAFKL 433
Cdd:PRK11057 359 QQQDIERHKLNAMGAFAEAQTCRRLVLLNYFGE-----------GRQEPCGNCDICLDPPKQYDGLED--------AQKA 419

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 434 LSAVDILGEKFGIGLPILFLRGSNSQRLAD-QYRRHSLFGTGKDQTESWWKAFSRQLITEGFLVE-VSRYNKfmkicalt 511
Cdd:PRK11057 420 LSCIYRVNQRFGMGYVVEVLRGANNQRIRDyGHDKLKVYGIGRDKSHEHWVSVIRQLIHLGLVTQnIAQHSA-------- 491

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 512 kkgrnwlhkantesqsliLQANEELCPkklllpssktVSSGtkehcynQVPVELSTEKKSNLEKLYSYKpcdkiSSGSNI 591
Cdd:PRK11057 492 ------------------LQLTEAARP----------VLRG-------EVSLQLAVPRIVALKPRAMQK-----SFGGNY 531

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 592 SKKsimvqspekaysssqpvisaqeqetqivLYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGV 671
Cdd:PRK11057 532 DRK----------------------------LFAKLRKLRKSIADEENIPPYVVFNDATLIEMAEQMPITASEMLSVNGV 583

                        650
                 ....*....|....*..
gi 767951195 672 SEGKAAMLA-PLLEVIK 687
Cdd:PRK11057 584 GQRKLERFGkPFMALIR 600
DEXHc_RecQ3 cd18017
DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ...
 42-198 4.92e-95

DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ATP-dependent helicase or WRN) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Werner's syndrome.


Pssm-ID: 350775 [Multi-domain]  Cd Length: 193  Bit Score: 296.69  E-value: 4.92e-95
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  42 YGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSENVLTDIKLGKYRIVYVTPEYCSGNMGLLQ 121
Cdd:cd18017   39 YGKSLCYQYPSVLLNSLTLVISPLISLMEDQVLQLVMSNIPACFLGSAQSQNVLDDIKMGKIRVIYVTPEFVSKGLELLQ 118

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 767951195 122 QLEAdiGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGFD 198
Cdd:cd18017  119 QLRN--GITLIAIDEAHCVSQWGHDFRSSYRHLGSIRNRLPNVPIVALTATATPSVRDDIIKNLNLRNPQITCTSFD 193
PLN03137 PLN03137
ATP-dependent DNA helicase; Q4-like; Provisional
 43-574 1.18e-80

ATP-dependent DNA helicase; Q4-like; Provisional


Pssm-ID: 215597 [Multi-domain]  Cd Length: 1195  Bit Score: 283.71  E-value: 1.18e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   43 GKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGS----AQSENVLTDI--KLGKYRIVYVTPEYCSGN 116
Cdd:PLN03137  487 GKSLTYQLPALICPGITLVISPLVSLIQDQIMNLLQANIPAASLSAgmewAEQLEILQELssEYSKYKLLYVTPEKVAKS 566

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  117 MGLLQQLEADIGITLIA---VDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQIT 193
Cdd:PLN03137  567 DSLLRHLENLNSRGLLArfvIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVF 646

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  194 CTGFDRPNLYLEVRRKTGNILQDLQPFLvkTSSHweFEGPTIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDI 273
Cdd:PLN03137  647 RQSFNRPNLWYSVVPKTKKCLEDIDKFI--KENH--FDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFV 722

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  274 HHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNE 353
Cdd:PLN03137  723 QKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDYIRVKHMISQGGVE 802

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  354 KFRL---YKLKM------------MAKMEKYLHSS-RCRRQIILSHFEDKqvqkasLGIMGTEKCCDNCRSrldhCYSMD 417
Cdd:PLN03137  803 QSPMamgYNRMAssgriletntenLLRMVSYCENEvDCRRFLQLVHFGEK------FDSTNCKKTCDNCSS----SKSLI 872

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  418 DSEDTSwdfgpQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLadQYRRH---SLFGTGKDQTESWWKAFSRQLITEGF 494
Cdd:PLN03137  873 DKDVTE-----IARQLVELVKLTGERFSSAHILEVYRGSLNQYV--KKHRHetlSLHGAGKHLSKGEASRILHYLVTEDI 945

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  495 LVE-VSRYNKFMKICALTKKGRNWLHKANTESQSLILQaneelcpkkllLPSSKTVSSGTKEHCyNQVPVELSTEKKSNL 573
Cdd:PLN03137  946 LAEdVKKSDLYGSVSSLLKVNESKAYKLFSGGQTIIMR-----------FPSSVKASKPSKFEA-TPAKGPLTSGKQSTL 1013


                  .
gi 767951195  574 E 574
Cdd:PLN03137 1014 P 1014
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
 43-198 6.51e-71

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


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 232.81  E-value: 6.51e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQS----ENVLTDIKLGKYRIVYVTPEYC--SGN 116
Cdd:cd17920   39 GKSLCYQLPALLLDGVTLVVSPLISLMQDQVDRLQQLGIRAAALNSTLSpeekREVLLRIKNGQYKLLYVTPERLlsPDF 118

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 117 MGLLQQLEADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTG 196
Cdd:cd17920  119 LELLQRLPERKRLALIVVDEAHCVSQWGHDFRPDYLRLGRLRRALPGVPILALTATATPEVREDILKRLGLRNPVIFRAS 198


                 ..
gi 767951195 197 FD 198
Cdd:cd17920  199 FD 200
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 199-335 2.00e-69

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


Pssm-ID: 350181 [Multi-domain]  Cd Length: 134  Bit Score: 225.94  E-value: 2.00e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 199 RPNLYLEVRRKTGNILQDLQPFLVKtssHWEFEGPTIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFV 278
Cdd:cd18794    1 RPNLFYSVRPKDKKDEKLDLLKRIK---VEHLGGSGIIYCLSRKECEQVAARLQSKGISAAAYHAGLEPSDRRDVQRKWL 77

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 767951195 279 RDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLW 335
Cdd:cd18794   78 RDKIQVIVATVAFGMGIDKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECILFY 134
DEXHc_RecQ1 cd18015
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ...
 43-198 1.19e-42

DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350773 [Multi-domain]  Cd Length: 209  Bit Score: 154.45  E-value: 1.19e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQS-ENV------LTDIKlGKYRIVYVTPEYCSG 115
Cdd:cd18015   45 GKSLCYQLPALCSDGFTLVVSPLISLMEDQLMALKKLGISATMLNASSSkEHVkwvhaaLTDKN-SELKLLYVTPEKIAK 123

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 116 NMGLLQQLEA--DIG-ITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQI 192
Cdd:cd18015  124 SKRFMSKLEKayNAGrLARIAIDEVHCCSQWGHDFRPDYKKLGILKRQFPNVPILGLTATATSKVLKDVQKILCIQKCLT 203


                 ....*.
gi 767951195 193 TCTGFD 198
Cdd:cd18015  204 FTASFN 209
DEXHc_RecQ4-like cd18018
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ...
 43-192 7.75e-38

DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Rothmund-Thomson/RAPADILINO/Baller-Gerold syndrome.


Pssm-ID: 350776 [Multi-domain]  Cd Length: 201  Bit Score: 140.47  E-value: 7.75e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYP----PVYVGKIGLVISPLISLMEDQVLQLKMSNIPACF---LGSAQSENVLTDIKLGKYRIVYVTPEYCSG 115
Cdd:cd18018   39 GKSLCYQLPalllRRRGPGLTLVVSPLIALMKDQVDALPRAIKAAALnssLTREERRRILEKLRAGEVKILYVSPERLVN 118

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 116 NMG--LLQQLEadiGITLIAVDEAHCISEWGHDFRDSFRKLGS-LKTALPMVPIVALTATASSSIREDIVRCLNLRNPQI 192
Cdd:cd18018  119 ESFreLLRQTP---PISLLVVDEAHCISEWSHNFRPDYLRLCRvLRELLGAPPVLALTATATKRVVEDIASHLGIPESGV 195
DEXHc_RecQ2_BLM cd18016
DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom ...
 25-198 5.70e-36

DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom syndrome protein homolog or BLM) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations in RecQ2 cause Bloom syndrome.


Pssm-ID: 350774 [Multi-domain]  Cd Length: 208  Bit Score: 135.34  E-value: 5.70e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  25 SKLLASRCTLAIPVLNryGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSENVLTDI--KLGK 102
Cdd:cd18016   28 AALLGEDCFVLMPTGG--GKSLCYQLPACVSPGVTVVISPLRSLIVDQVQKLTSLDIPATYLTGDKTDAEATKIylQLSK 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 103 ----YRIVYVTPEYCSGNMGLLQQLEADIGITLIA---VDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASS 175
Cdd:cd18016  106 kdpiIKLLYVTPEKISASNRLISTLENLYERKLLArfvIDEAHCVSQWGHDFRPDYKRLNMLRQKFPSVPMMALTATATP 185

                        170       180
                 ....*....|....*....|...
gi 767951195 176 SIREDIVRCLNLRNPQITCTGFD 198
Cdd:cd18016  186 RVQKDILNQLKMLRPQVFTMSFN 208
DEXHc_RecQ5 cd18014
DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ ...
 42-190 9.41e-35

DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350772 [Multi-domain]  Cd Length: 205  Bit Score: 131.82  E-value: 9.41e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  42 YGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQS----ENVLTDIK--LGKYRIVYVTPEYCSG 115
Cdd:cd18014   40 AGKSLCYQLPALLAKGITIVISPLIALIQDQVDHLKTLKIRVDSLNSKLSaqerKRIIADLEseKPQTKFLYITPEMAAT 119

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 767951195 116 N--MGLLQQLEADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNP 190
Cdd:cd18014  120 SsfQPLLSSLVSRNLLSYLVVDEAHCVSQWGHDFRPDYLRLGALRSRYGHVPWVALTATATPQVQEDIFAQLRLKKP 196
DpdF NF041063
protein DpdF;
43-354 1.66e-34

protein DpdF;


Pssm-ID: 468990 [Multi-domain]  Cd Length: 813  Bit Score: 141.97  E-value: 1.66e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYVGKIG---LVISPLISLMEDQVLQLK-MSNIPACFLG------SAQSEN----VLTDIKLGKYRIVYV 108
Cdd:NF041063 170 GKSLVAQAPALLASRQGgltLVVVPTVALAIDQERRAReLLRRAGPDLGgplawhGGLSAEeraaIRQRIRDGTQRILFT 249

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 109 TPEycSGNMGLLQQLE--ADIG-ITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMV-----PI--VALTATASSSIR 178
Cdd:NF041063 250 SPE--SLTGSLRPALFdaAEAGlLRYLVVDEAHLVDQWGDGFRPEFQLLAGLRRSLLRLapsgrPFrtLLLSATLTESTL 327

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 179 E---------DIVRCLN---LRN-PQITCTGFDRPNLYLE-----VRRktgnilqdlqpfLVKtsshwefegPTIIYCPS 240
Cdd:NF041063 328 DtletlfgppGPFIVVSavqLRPePAYWVAKCDSEEERRErvleaLRH------------LPR---------PLILYVTK 386

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 241 RKMTQQVTGELRKLNLS-CGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEI 319
Cdd:NF041063 387 VEDAEAWLQRLRAAGFRrVALFHGDTPDAERERLIEQWRENELDIVVATSAFGLGMDKSDVRTVIHACVPETLDRFYQEV 466

                        330       340       350
                 ....*....|....*....|....*....|....*..
gi 767951195 320 GRAGRDGLQSSCHVLWAPADINLNRHLLTE--IRNEK 354
Cdd:NF041063 467 GRGGRDGKASLSLLIYTPDDLDIAKSLNRPklISVEK 503
RQC smart00956
This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix ...
 425-518 3.04e-26

This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; The RQC domain, found only in RecQ family enzymes, is a high affinity G4 DNA binding domain.


Pssm-ID: 214936 [Multi-domain]  Cd Length: 92  Bit Score: 103.32  E-value: 3.04e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   425 DFGPQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLADQ-YRRHSLFGTGKDQTESWWKAFSRQLITEGFLVEvsrYNK 503
Cdd:smart00956   1 DVTEEAQKLLSCVYRTGQRFGAGHVIDVLRGSKNKKIRQKgHDRLSTFGIGKDLSKKEWRRLIRQLIAEGYLRE---DGG 77

                           90
                   ....*....|....*
gi 767951195   504 FMKICALTKKGRNWL 518
Cdd:smart00956  78 RYPYLKLTEKARPVL 92
HELICc smart00490
helicase superfamily c-terminal domain;
245-326 2.47e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 94.59  E-value: 2.47e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   245 QQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGR 324
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80


                   ..
gi 767951195   325 DG 326
Cdd:smart00490  81 AG 82
HTH_40 pfam14493
Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of ...
 725-819 9.00e-21

Helix-turn-helix domain; This presumed domain is found at the C-terminus of a large number of helicase proteins.


Pssm-ID: 464189  Cd Length: 89  Bit Score: 87.56  E-value: 9.00e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  725 SMAITYSLFQEKkMPLKSIAESRILPLMTIGMHLSQAVKAGCPLDLERAgLTPEVQKIIADVIRNPPVNSdmskISLIRM 804
Cdd:pfam14493   1 SAEITLELYKEG-LSIEEIAEERGLKESTIEGHLAELIEAGEPVDIERL-VSEEEQKEILDAIEKLGSES----LKPIKE 74

                          90
                  ....*....|....*
gi 767951195  805 LVPENIDTYLIHMAI 819
Cdd:pfam14493  75 ALPEEISYFEIRLVL 89
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 229-326 1.66e-19

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: 84.57  E-value: 1.66e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  229 EFEGPTIIYCPSRKMTQqvTGEL-RKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYG 307
Cdd:pfam00271  13 ERGGKVLIFSQTKKTLE--AELLlEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYD 90

                          90
                  ....*....|....*....
gi 767951195  308 APKDMESYYQEIGRAGRDG 326
Cdd:pfam00271  91 LPWNPASYIQRIGRAGRAG 109
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 42-179 1.03e-18

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: 84.22  E-value: 1.03e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   42 YGKSLCFQYP------PVYVGKIGLVISPLISLMEDQVLQLK-----MSNIPACFLGSAQSENVLTDIKlgKYRIVYVTP 110
Cdd:pfam00270  25 SGKTLAFLLPalealdKLDNGPQALVLAPTRELAEQIYEELKklgkgLGLKVASLLGGDSRKEQLEKLK--GPDILVGTP 102

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 767951195  111 E---YCSGNMGLLQQLEadigitLIAVDEAHCISEWGhdFRDSFRKLgsLKTALPMVPIVALTATASSSIRE 179
Cdd:pfam00270 103 GrllDLLQERKLLKNLK------LLVLDEAHRLLDMG--FGPDLEEI--LRRLPKKRQILLLSATLPRNLED 164
HRDC smart00341
Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the ...
 623-696 5.56e-18

Helicase and RNase D C-terminal; Hypothetical role in nucleic acid binding. Mutations in the HRDC domain cause human disease.


Pssm-ID: 128635 [Multi-domain]  Cd Length: 81  Bit Score: 79.26  E-value: 5.56e-18
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767951195   623 LYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAMLAP-LLEVIKHFCQTNSVQ 696
Cdd:smart00341   7 LLRRLRQWRDEIARREDVPPYFVLPDETLIKMAAALPTNVSELLAIDGVGEEKARRYGKdLLAVIQEASDSPSEA 81
DEXDc smart00487
DEAD-like helicases superfamily;
43-207 3.36e-17

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 81.00  E-value: 3.36e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195    43 GKSLCFQYPPVYVGKIG-----LVISPLISLMEDQVLQLK-----MSNIPACFLGSAQSENVLTDIKLGKYRIVYVTPEY 112
Cdd:smart00487  36 GKTLAALLPALEALKRGkggrvLVLVPTRELAEQWAEELKklgpsLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGR 115

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195   113 csgnmgLLQQLEAD----IGITLIAVDEAHCISEWGhdFRDSFRKLgsLKTALPMVPIVALTATASSSIREDIVRCLNLR 188
Cdd:smart00487 116 ------LLDLLENDklslSNVDLVILDEAHRLLDGG--FGDQLEKL--LKLLPKNVQLLLLSATPPEEIENLLELFLNDP 185

                          170
                   ....*....|....*....
gi 767951195   189 npqITCTGFDRPNLYLEVR 207
Cdd:smart00487 186 ---VFIDVGFTPLEPIEQF 201
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 221-324 6.87e-16

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


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 74.85  E-value: 6.87e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 221 LVKTSSHWEFEGPTIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADI 300
Cdd:cd18787   17 LLLLLLEKLKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVRVLVATDVAARGLDIPGV 96

                         90       100
                 ....*....|....*....|....
gi 767951195 301 RQVIHYGAPKDMESYYQEIGRAGR 324
Cdd:cd18787   97 DHVINYDLPRDAEDYVHRIGRTGR 120
RQC pfam09382
RQC domain; This DNA-binding domain is found in the RecQ helicase among others and has a ...
 420-518 1.97e-15

RQC domain; This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure. The RQC domain, found only in RecQ family enzymes, is a high affinity G4 DNA binding domain.


Pssm-ID: 462780 [Multi-domain]  Cd Length: 108  Bit Score: 72.96  E-value: 1.97e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  420 EDTSWDFGPQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLAdQYRRHSL--FGTGKDQTESWWKAFSRQLITEGFL-V 496
Cdd:pfam09382   1 PPETVDVTEEAQKILSCVYRTGQRFGAGHLIDVLRGSKNKKIR-QLGHDKLstFGIGKDLSKKEWRRIIRQLIAEGYLeV 79

                          90       100
                  ....*....|....*....|..
gi 767951195  497 EVSRYNkfmkICALTKKGRNWL 518
Cdd:pfam09382  80 DIEFYS----VLKLTPKAREVL 97
SF2_C_Hrq cd18797
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ...
 234-326 3.90e-14

C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. HrQ family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350184 [Multi-domain]  Cd Length: 146  Bit Score: 70.36  E-value: 3.90e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 234 TIIYCPSRKMTQQVTGELR-------KLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHY 306
Cdd:cd18797   38 TIVFCRSRKLAELLLRYLKarlveegPLASKVASYRAGYLAEDRREIEAELFNGELLGVVATNALELGIDIGGLDAVVLA 117

                         90       100
                 ....*....|....*....|
gi 767951195 307 GAPKDMESYYQEIGRAGRDG 326
Cdd:cd18797  118 GYPGSLASLWQQAGRAGRRG 137
HRDC pfam00570
HRDC domain; The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic ...
 620-686 6.88e-12

HRDC domain; The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding. Mutations in the HRDC domain cause human disease. It is interesting to note that the RecQ helicase in Deinococcus radiodurans has three tandem HRDC domains.


Pssm-ID: 425755 [Multi-domain]  Cd Length: 68  Bit Score: 61.40  E-value: 6.88e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 767951195  620 QIVLYGKLVEARQKHANKMDVPPAILATNKILVDMAKMRPTTVENVKRIDGVSEGKAAMLAP-LLEVI 686
Cdd:pfam00570   1 QLALLKALREWRDELAREEDVPPYVIFPDKTLLEIAEKLPRTLEELLAIPGVGPRKVERYGEeILAAI 68
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 197-327 1.76e-11

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


Pssm-ID: 350182 [Multi-domain]  Cd Length: 154  Bit Score: 62.96  E-value: 1.76e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 197 FDRPNLYLEVRRKTGNILQDLQPFLVKTSSHwEFEGPTIIYCPSRKMTQQVTgelrkLNLSC-GTYHAGMSFSTRKDIHH 275
Cdd:cd18795   10 LGFNGLGIKLRVDVMNKFDSDIIVLLKIETV-SEGKPVLVFCSSRKECEKTA-----KDLAGiAFHHAGLTREDRELVEE 83

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 767951195 276 RFVRDEIQCVIATIAFGMGIN-KAdiRQVI----HYGAPKDME-----SYYQEIGRAGRDGL 327
Cdd:cd18795   84 LFREGLIKVLVATSTLAAGVNlPA--RTVIikgtQRYDGKGYRelsplEYLQMIGRAGRPGF 143
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 234-326 3.68e-09

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


Pssm-ID: 440818 [Multi-domain]  Cd Length: 758  Bit Score: 60.62  E-value: 3.68e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 234 TIIYCPSRKMTQQVTGELRKLNLSCG------TYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYG 307
Cdd:COG1205  291 TLVFTRSRRGAELLARYARRALREPDladrvaAYRAGYLPEERREIERGLRSGELLGVVSTNALELGIDIGGLDAVVLAG 370

                         90
                 ....*....|....*....
gi 767951195 308 APKDMESYYQEIGRAGRDG 326
Cdd:COG1205  371 YPGTRASFWQQAGRAGRRG 389
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 128-326 4.84e-09

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 59.80  E-value: 4.84e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 128 GITLIAVDEAHCISEWGhdFRDsfrKLGSLKTALPMVPIVALTATASSSIrEDIVRCLnLRNPQ-ITCTGFDRPN----- 201
Cdd:PLN00206 270 NVSVLVLDEVDCMLERG--FRD---QVMQIFQALSQPQVLLFSATVSPEV-EKFASSL-AKDIIlISIGNPNRPNkavkq 342

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 202 --LYLEVRRKTGNILQdlqpfLVKTSSHweFEGPTIIYCPSRKMTQQVTGELRKLN-LSCGTYHAGMSFSTRKDIHHRFV 278
Cdd:PLN00206 343 laIWVETKQKKQKLFD-----ILKSKQH--FKPPAVVFVSSRLGADLLANAITVVTgLKALSIHGEKSMKERREVMKSFL 415

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 767951195 279 RDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDG 326
Cdd:PLN00206 416 VGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMG 463
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
234-327 1.81e-08

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 57.85  E-value: 1.81e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 234 TIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIAT-IAfGMGINKADIRQVIHYGAPKDM 312
Cdd:COG0513  244 AIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATdVA-ARGIDIDDVSHVINYDLPEDP 322

                         90
                 ....*....|....*...
gi 767951195 313 ESYYQEIG---RAGRDGL 327
Cdd:COG0513  323 EDYVHRIGrtgRAGAEGT 340
RecQ_Zn_bind pfam16124
RecQ zinc-binding; This domain is the zinc-binding domain of ATP-dependent DNA helicase RecQ.
 337-407 2.23e-08

RecQ zinc-binding; This domain is the zinc-binding domain of ATP-dependent DNA helicase RecQ.


Pssm-ID: 465031 [Multi-domain]  Cd Length: 66  Bit Score: 51.52  E-value: 2.23e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767951195  337 PADINLNRHLLT-EIRNEKFRLYKLKMMAKMEKY-LHSSRCRRQIILSHFEDKqvqkaslgiMGTEKC--CDNCR 407
Cdd:pfam16124   1 YQDVVRLRFLIEqSEADEERKEVELQKLQAMVAYcENTTDCRRKQLLRYFGEE---------FDSEPCgnCDNCL 66
PTZ00424 PTZ00424
helicase 45; Provisional
 235-350 4.60e-08

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 56.37  E-value: 4.60e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 235 IIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMES 314
Cdd:PTZ00424 271 IIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPEN 350

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 767951195 315 YYQEIGRAGRDGLQSSCHVLWAPADI----NLNRHLLTEI 350
Cdd:PTZ00424 351 YIHRIGRSGRFGRKGVAINFVTPDDIeqlkEIERHYNTQI 390
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 267-326 5.52e-08

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


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 50.78  E-value: 5.52e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 267 FSTRKDiHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDG 326
Cdd:cd18785    9 FTNSIE-HAEEIASSLEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGG 67
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 234-324 1.55e-07

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


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 51.50  E-value: 1.55e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 234 TIIYCPSRKMTQQVTGELRKL------NLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYG 307
Cdd:cd18796   41 TLVFTNTRSQAERLAQRLRELcpdrvpPDFIALHHGSLSRELREEVEAALKRGDLKVVVATSSLELGIDIGDVDLVIQIG 120

                         90
                 ....*....|....*..
gi 767951195 308 APKDMESYYQEIGRAGR 324
Cdd:cd18796  121 SPKSVARLLQRLGRSGH 137
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 43-172 2.49e-07

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: 50.86  E-value: 2.49e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195  43 GKSLCFQYPPVYV----GKIGLVISPLISLMEDQ---VLQLKMSNIPACFLGSAQSENVLTDIKLGKYRIVYVTPEYCSG 115
Cdd:cd00046   13 GKTLAALLAALLLllkkGKKVLVLVPTKALALQTaerLRELFGPGIRVAVLVGGSSAEEREKNKLGDADIIIATPDMLLN 92

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 767951195 116 NMGLLQQLEADiGITLIAVDEAHCISEWGHDFRDSfrKLGSLKTALPMVPIVALTAT 172
Cdd:cd00046   93 LLLREDRLFLK-DLKLIIVDEAHALLIDSRGALIL--DLAVRKAGLKNAQVILLSAT 146
COG1202 COG1202
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
230-324 4.22e-07

Superfamily II helicase, archaea-specific [Replication, recombination and repair];


Pssm-ID: 440815 [Multi-domain]  Cd Length: 790  Bit Score: 53.74  E-value: 4.22e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 230 FEGPTIIYCPSRKMTQQVTgelRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGInkaDI--RQVIhyg 307
Cdd:COG1202  426 YRGQTIIFTNSRRRCHEIA---RALGYKAAPYHAGLDYGERKKVERRFADQELAAVVTTAALAAGV---DFpaSQVI--- 496

                         90       100
                 ....*....|....*....|....*....
gi 767951195 308 apkdMES------------YYQEIGRAGR 324
Cdd:COG1202  497 ----FDSlamgiewlsvqeFHQMLGRAGR 521
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
116-322 5.49e-07

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 53.49  E-value: 5.49e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 116 NMGLLQQLEADIGitLIAVDEAHcisewgHDFRDSFRKLGSlktALPMVPIVALTAT--ASSSIREDIVRCLN------- 186
Cdd:COG1061  177 RRAHLDELGDRFG--LVIIDEAH------HAGAPSYRRILE---AFPAAYRLGLTATpfRSDGREILLFLFDGivyeysl 245

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 187 --------LRNP---QITCTGFDRPNLYLEVRRKTGNILQDLQPFLVKTSSHWEFE----GPTIIYCPSRKMTQQVTGEL 251
Cdd:COG1061  246 keaiedgyLAPPeyyGIRVDLTDERAEYDALSERLREALAADAERKDKILRELLREhpddRKTLVFCSSVDHAEALAELL 325

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 767951195 252 RKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRA 322
Cdd:COG1061  326 NEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILLRPTGSPREFIQRLGRG 396
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 235-333 9.92e-06

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


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 45.93  E-value: 9.92e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 235 IIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCV--IATIAFGMGIN--KADIrqVIHYGAP- 309
Cdd:cd18793   31 LIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPDIRVflLSTKAGGVGLNltAANR--VILYDPWw 108

                         90       100
                 ....*....|....*....|....*..
gi 767951195 310 ---KDMesyyQEIGRAGRDGLQSSCHV 333
Cdd:cd18793  109 npaVEE----QAIDRAHRIGQKKPVVV 131
PTZ00110 PTZ00110
helicase; Provisional
 204-354 2.41e-04

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 44.76  E-value: 2.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 204 LEVRRKTGNILQDLQPFLVKTSShwefegpTIIYCPSRKMTQQVTGELRKLNLSCGTYHAgmsfsTRKDIHHRFVRDEIQ 283
Cdd:PTZ00110 357 VEEHEKRGKLKMLLQRIMRDGDK-------ILIFVETKKGADFLTKELRLDGWPALCIHG-----DKKQEERTWVLNEFK 424

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 767951195 284 -----CVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNEK 354
Cdd:PTZ00110 425 tgkspIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPDKYRLARDLVKVLREAK 500
PRK09751 PRK09751
putative ATP-dependent helicase Lhr; Provisional
 260-323 2.59e-04

putative ATP-dependent helicase Lhr; Provisional


Pssm-ID: 137505 [Multi-domain]  Cd Length: 1490  Bit Score: 44.92  E-value: 2.59e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767951195  260 TYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAG 323
Cdd:PRK09751  306 SHHGSVSKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAG 369
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 234-326 1.20e-03

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 42.53  E-value: 1.20e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767951195 234 TIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDME 313
Cdd:PRK11634 248 AIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPMDSE 327

                         90
                 ....*....|...
gi 767951195 314 SYYQEIGRAGRDG 326
Cdd:PRK11634 328 SYVHRIGRTGRAG 340
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 259-326 9.53e-03

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


Pssm-ID: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 37.57  E-value: 9.53e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 767951195 259 GTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGInkaDIRQ---VIHYGAPKDMESYYQEIGRAGRDG 326
Cdd:cd18802   68 QRKRSLMTQRKQKETLDKFRDGELNLLIATSVLEEGI---DVPAcnlVIRFDLPKTLRSYIQSRGRARAPN 135
 
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