Conserved Protein Domain Family
rad3

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TIGR00604: rad3 
DNA repair helicase (rad3)
All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]
Statistics
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PSSM-Id: 273169
Aligned: 9 rows
Threshold Bit Score: 715.726
Created: 8-Oct-2014
Updated: 25-Oct-2021
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
P26659         7 DLPILFPYPRiY-----PEQYQYMCDLKHSLDAGGIALL-----EMPSGTGKTI--------------------SLLSLI 56   Schizosaccharo...
P06839         7 DLPVLFPYPKiY-----PEQYNYMCDIKKTLDVGGNSIL-----EMPSGTGKTV--------------------SLLSLT 56   Saccharomyces ...
AAA85822       7 GLLVYFPYDYiY-----PEQYSYMLELKRTLDAKGHGVL-----EMPSGTGKTI--------------------SLLSLI 56   southern platy...
AAB62733       7 DLLVYFPYSYiY-----PEQYSYMVALKRSLDNGGPCIL-----EMPSGTGKTV--------------------SLLSLI 56   Dictyostelium ...
CAA88959     121 ARRGMVEVSR--------KRKAPARDTDQFLEPQDEAAPs----EEYNNDEKSEkq----------------rdSDFFDD 172  Caenorhabditis...
CAB16287     131 NSTTYHRETKrRninaeASTSDNCNNSNTSVDPMDEYLVta-eyTMPSTSEQSEdlfnng---------ysskvSELLRK 200  fission yeast
P22516       136 EHGRYKSVDPlR------KKRKGARHLDVSLEEQDFIPRpyesdSENNDTSKSTrggrisdkdyklselnsqiiTLLDKI 209  Saccharomyces ...
NP_492769     16 KLSVKFPFEP-Y-----ECQRIFMKNVVDVLDRKLDAAL-----ESPTGTGKTL--------------------SLLCST 64   Caenorhabditis...
WP_010884791   2 EELQYFPYEKfR-----PNQREFIEIVKEAVKRGENLIV-----EAPTGFGKTI--------------------SVLAGV 51   Pyrococcus hor...
P26659        57 VSYQQHYP-----------EHRKLIYCSRTMSEIDKALAELKRLMAYRTSQLGYEEP-FLGLGLTSRKNLCLHPSVRREK 124  Schizosaccharo...
P06839        57 IAYQMHYP-----------EHRKIIYCSRTMSEIEKALVELENLMDYRTKELGYQED-FRGLGLTSRKNLCLHPEVSKER 124  Saccharomyces ...
AAA85822      57 VAYQRAFPl----------DVTKLIYCSRTVPEIEKVVEELRKLMEFYAKETGEVNN-FLALSLSSRKNLCIHPEVSSLR 125  southern platy...
AAB62733      57 SSYQVKNP------------SIKLIYCSRTVPEIEQATEEARRVLQYRNSEMGEESPkTLCMSMSSRRNLCIQPRVSEER 124  Dictyostelium ...
CAA88959     173 VDEEEEKPl----------KCLKIFYASRTHSQLEQLAEELAKTR--FQPRIVTCASrGTLCVNEEVKKLKLNHLINEKC 240  Caenorhabditis...
CAB16287     201 LSPDNEKPp----------IVQKIYFTSRTHSQLQQLVQEIKKLN-----NQTFSTP-IRVVSLASRKNLCINNEVRKLR 264  fission yeast
P22516       210 DGKVSRDPnngdrfdvtnqNPVKIYYASRTYSQLGQFTSQLRLPSFPSSFRDKVPDEkVKYLPLASKKQLCINPKVMKWK 289  Saccharomyces ...
NP_492769     65 LAWVQRQK-----------ETKPLDFATWQTSGAGGAEKTDEKLKSAYVPTIFYASRtHSQLEQVVHELNRTEYKWVKTT 133  Caenorhabditis...
WP_010884791  52 LPYAISLG-------------YKVVYLARTHKQMDRVIEELRK--------IGEKSE-VSGIEFRSRKDLCLHAYIQTFA 109  Pyrococcus hor...
P26659       125 NGNVVDARCRSLTAGFVREQRLAG------MDVPTCEFHDNLEDL-------EPHSLISNGVWTLDDITEYGEKTTRCPY 191  Schizosaccharo...
P06839       125 KGTVVDEKCRRMTNGQAKRKLEEDp----eANVELCEYHENLYNI-------EVEDYLPKGVFSFEKLLKYCEEKTLCPY 193  Saccharomyces ...
AAA85822     126 FGKEVDGKCHSLTASYIRAQRHSNp------NQPVCRFYEEFDAV-------GRQVPLPAGIYNLDDLKDFGRRKGWCPY 192  southern platy...
AAB62733     125 DGKVVDALCRELTSSWNR----ESp------TSEKCKFFENFESN-------GKEILLEG-VYSLEDLKEYGLKHQMCPY 186  Dictyostelium ...
CAA88959     241 MELRKNGMSEKEKVQKLEKGTTKKt----kTCATSCEFYNSTQIEd------VVNGVLSNKLKSTLEVSKQGKLSNGCPY 310  Caenorhabditis...
CAB16287     265 PTSALNEKCIELQGSAHK-----------------CPFLQDNTQLw------DFRDEALAEIMDIEELVELGQRLKVCPY 321  fission yeast
P22516       290 TLEAINDACADLRHSKEG-----------------CIFYQNTNEWrhcpdtlALRDMIFSEIQDIEDLVPLGKSLGICPY 352  Saccharomyces ...
NP_492769    134 ILGSREHFCINQKVKKIKESNRQAhvcrglVSKRACHYYNKFDACtt---dkMTEFLDKGEAMDIEDFVKLGTQNSLCPY 210  Caenorhabditis...
WP_010884791 110 QDAYTSMIVCKSLRKLGK-----------------CKYYENLKEKrdr--vdEIVKFFLSFPPFPREVIEYSELLELCPY 170  Pyrococcus hor...
P26659       192 FTVRRMLPFCNVIIYSYHYLLDPKIAERVSREL----SKdCIVVFDEAHNIDNVCIESLS---IDLTESSLRKASKSILS 264  Schizosaccharo...
P06839       194 FIVRRMISLCNIIIYSYHYLLDPKIAERVSNEV----SKdSIVIFDEAHNIDNVCIESLS---LDLTTDALRRATRGANA 266  Saccharomyces ...
AAA85822     193 YLARYSILHANIVVYSYHYLLDPKIADLVSKEL----AKkSVVVFDEAHNIDNVCIDSMS---VNITRRTVDRCQNNVDT 265  southern platy...
AAB62733     187 FLSRHMLNFANIVIFSYQYLLDPKIASLISSSF----PSnSIVVFDEAHNIDNVCINALS---INIDNKLLDTSSKNIAK 259  Dictyostelium ...
CAA88959     311 FATRKSVPQCQLVLLPYQVLLHDGTRKAWGIEL----KD-NVIVLDEAHNVLNTISSFFFrklEKVSKNGFKNCSLYSAE 385  Caenorhabditis...
CAB16287     322 YGTREAVDSAQIVTLPYPLLLQESARNALNLTL----KD-NICIIDEAHNLIDAICSMHS---SSISFRQVCIAETQLQQ 393  fission yeast
P22516       353 YASREALPIAEVVTLPYQYLLSESTRSSLQINL----EN-SIVIIDEAHNLIETINSIYS---SQISLEDLKNCHKGIVT 424  Saccharomyces ...
NP_492769    211 FMSRQRSETAELILLPYNYIIDPKMRRRYKLDL----KN-SIVIFDEAHNLESICESNAS---AELTSTSIALCIEELKK 282  Caenorhabditis...
WP_010884791 171 EITKKVGEKANVVVASYLYMISPPIRQAFLENLgvdySD-LIVIFDEAHNLPDQAISALS---DRLSVRSIERAIKEAEE 246  Pyrococcus hor...
P26659       265 LEQKVNEVK-----QSDSKK------LQDEYQKLVRGLQDANAANDeDQ-FMANPVLPEDVLK---EAVPGNIRRAEHFI 329  Schizosaccharo...
P06839       267 LDERISEVR-----KVDSQK------LQDEYEKLVQGLHSADILTDqEEpFVETPVLPQDLLT---EAIPGNIRRAEHFV 332  Saccharomyces ...
AAA85822     266 LQNTIHKIK-----ETDAAK------LREEYRRLVEGLKEANVARE-TDiYLANPVLPDEVLQ---EAVPGSIRTAEHFV 330  southern platy...
AAB62733     260 INKQIEDIK-----KVDEKR------LKDEYQRLVNGLARSGSTR--ADeTTSDPVLPNDVIQ---EAVPGNIRKPSIFI 323  Dictyostelium ...
CAA88959     386 ISTKSLTLAlrlirEYNAHY------KLKLLAHNLLYMKQLESLTSkMLiFLNSQSKEDVMTM---AQLARNLNILEINL 456  Caenorhabditis...
CAB16287     394 YFLRFEKRL-----NGNNRM------HIKQLIKVVYNLKSFFLNC-----LETNTN-SKVINV---DSLLVSNGADQINL 453  fission yeast
P22516       425 YFNKFKSRL-----NPGNRV------NLLKLNSLLMTLIQFIVKN------FK--KIGQEIDP---NDMFTGSNIDTLNI 482  Saccharomyces ...
NP_492769    283 VLALLVDEEetarsEADAETgafgsaKIDLTKKLIENLRTEDLMTVlEKiFSLEEEMDKLFGSsqlKSVPPLSGKASDGE 362  Caenorhabditis...
WP_010884791 247 YGEKDIENF------------------LSILLRGLEILYKEKLEN-----------YESEEIP---------IRPEEVFL 288  Pyrococcus hor...
P26659       330 AFLKRFVEYLKTRMKVLHVIAETPTSFLQHVKDITFIDKkPLRFCAERLTSLVRALQISLVEDFHSLQQVVAFATLVATY 409  Schizosaccharo...
P06839       333 SFLKRLIEYLKTRMKVLHVISETPKSFLQHLKQLTFIERkPLRFCSERLSLLVRTLEVTEVEDFTALKDIATFATLISTY 412  Saccharomyces ...
AAA85822     331 GFLRRFLEYLKARLRVQHVVQESAPQFLKDIFDKVCIDRkPLRFCAERLQCLLRTLEIADIADFSAVTLISNFATLVSTY 410  southern platy...
AAB62733     324 SLLRRVVDYLKSRLKSQMLLSESPLAFLQGLYHATQISSrTLRFCSSRLSSLLRTLRINDVNQFSGISLIADFATLVGTY 403  Dictyostelium ...
CAA88959     457 FKLAEYMEKTDLCKKFHGFYMRLQKEEIKKENEKPKLTG-IQKLMAAKEAEPEPEAEPLPPPKPVP-SPLFSLKSFIDAL 534  Caenorhabditis...
CAB16287     454 HHLSEYLNVSKLARKVDGYT-KYMHSLGTQELESLNDLR------SERFSNGNGY----EEDPYTP--VLMQLESFLLNI 520  fission yeast
P22516       483 HKLLRYIKVSKIAYKIDTYN----QALKE---EE-----------SSKNENPIKE---THKKSVSSQPLLFKVSQFLYCL 541  Saccharomyces ...
NP_492769    363 ILLETLAKAGFDANSVERLVDVLRDAISYLLSKNEEVALtEKGDGMEKVADFLLSIYSTHAQDVAAAVGEETVKLVDRVD 442  Caenorhabditis...
WP_010884791 289 HPASILGWRGRDIGMMLEDMIEVGDAIRE-----------------DRIERNLP------PRSYVGRVGEFLWNWLSLRD 345  Pyrococcus hor...
P26659       410 ERGFILILEPF--EteNATVPNPILRFSCLDASIAIKPVFER-FRSVIITSGTLSPLDMYPKMLQFNTVMQESY-----G 481  Schizosaccharo...
P06839       413 EEGFLLIIEPY--EieNAAVPNPIMRFTCLDASIAIKPVFER-FSSVIITSGTISPLDMYPRMLNFKTVLQKSY-----A 484  Saccharomyces ...
AAA85822     411 SQGFTIIIEPF--EdrTPTIANPVLHFSCMDPSIAIKPVFQR-FQSVIITSGTLSPLDIYPRILDFRPVTMASF-----T 482  southern platy...
AAB62733     404 NNGFLIIIEPY--YqrQNNTYDQIFQFCCLDASIGMKPIFDK-YRSVVITSGTLSPLDIYTKMLNFRPTVVERL-----T 475  Dictyostelium ...
CAA88959     535 TNKCEDGRIIV--E---KSATEAKFRFMLLNPADRLSEVVTS-ARATILVGGTMEPAQLLVETLSRGSIGADSIrrfscC 608  Caenorhabditis...
CAB16287     521 ANPAPEGKLFY--E--KQTGDNPYLKYLLLDPSKHVEILTEQ-CRSVNLAGGTMSPIDDFITLLFSDEQSRILPfs--cD 593  fission yeast
P22516       542 TNLTSEGQFFF--E------KNYSIKYMLLEPSKPFESILNQ-AKCVVLAGGTMEPMSEFLSNLLPEVPSEDITtl-scN 611  Saccharomyces ...
NP_492769    443 PKTVARNCKLYiqK--DKDNEKLTIKYFCFQASISMRMLKMRgVRNVLLASGTLSPIQAFTYNMGLNFGAILEN-----E 515  Caenorhabditis...
WP_010884791 346 REDYLHLFTKE--K-------GLALELVALDPSVALDFLEE--VHSAIFMSGTLSPLEAFRDIIGVNARLKKFP------ 408  Pyrococcus hor...
P26659       482 MSLARNCFLPMVVTRGSdQVAISSKFEARNDPSVVRN-YGNILVEFSKITP--DGLVAFFPSYLYLESIVSSWQSMGILD 558  Schizosaccharo...
P06839       485 MTLAKKSFLPMIITKGSdQVAISSRFEIRNDPSIVRN-YGSMLVEFAKITP--DGMVVFFPSYLYMESIVSMWQTMGILD 561  Saccharomyces ...
AAA85822     483 MTLARTCLCPLIVGRGNdQVALSSKFETREDFAVIRN-YGNLLLEMSAVVP--DGIVAFFTSYVYMENIVASWYEQGILE 559  southern platy...
AAB62733     476 MSLNRNCICPCILTRGSdQISISTKFDVRSDTAVVRN-YGALLVEVSAIVP--DGIICFFTSYSYMEQIVSVWNEMGLLN 552  Dictyostelium ...
CAA88959     609 HVIDDSQLLAVTVERTVdGKPFQLTYQTRGADTTLRS-LATSIQALIPHIP--NGVVIFVPSYDFLFNFQKKMKEFGILK 685  Caenorhabditis...
CAB16287     594 HIVPPENITTILVSQGPaGVPFEFTHKRKDDENLLKD-LGRTFQNFISIIP--DGVVVFFPSFAFLQQAVKVWEMNGITN 670  fission yeast
P22516       612 HVIPKENLQTYITNQPE----LEFTFEKRMSPSLVNNhLFQFFVDLSKAVPkkGGIVAFFPSYQYLAHVIQCWKQNDRFA 687  Saccharomyces ...
NP_492769    516 HALKQVPVLTSIVTRGK-RGGLAGSFQNRKNLDYVTG-VAEALLRVMEVIP--QGILIFFSSYSQMDELVATWKTTKWSS 591  Caenorhabditis...
WP_010884791 409 RIVKRENAIVLVARDVS-------TRGIERSPPLYKR-IAEYIFEAVKNTP--KNVGVFTASYEVLEGVLSTNVHIKIEE 478  Pyrococcus hor...
P26659       559 E--------VWKYKLILVETPDP--HETTLALETYRAACSNGRGAVLLSVARGKVSEGVDFDHHYGRAVIMFGIPY---- 624  Schizosaccharo...
P06839       562 E--------VWKHKLILVETPDA--QETSLALETYRKACSNGRGAILLSVARGKVSEGIDFDHQYGRTVLMIGIPF---- 627  Saccharomyces ...
AAA85822     560 N--------IQKNKLIFIETQDA--AETSMALEKYQEACENGRGAILLSVARGKVSEGIDFVHHFGRAVIMFGVPY---- 625  southern platy...
AAB62733     553 N--------ILTNKLIFVETSDP--AESALALQNYKKACDSGRGAVLLSVARGKVSEGIDFDNQYGRCVILYGIPY---- 618  Dictyostelium ...
CAA88959     686 R--------IEEKKAVFTESR----QPTSDVWDRFSRAAKTSKGAILFAVVGGKMSEGINFCDELGRAVIVIGLPYp--- 750  Caenorhabditis...
CAB16287     671 R--------LNAKKPLFIESKDFg-DNPLDTFEHYKQSVDAGLSGMLFSVIGGRLSEGINFSDKLGRAVMVVGMPFpnsq 741  fission yeast
P22516       688 T--------LNNVRKIFYEAKDG-----DDILSGYSDSVAEGRGSLLLAIVGGKLSEGINFQDDLCRAVVMVGLPFpnif 754  Saccharomyces ...
NP_492769    592 NsnesfwekMEKTKRVVVEPRAK--EELAAIRLRYTQGVSEQHGAALLAVCRGKVSEGIDFCDAESRAVIIIGIPYppih 669  Caenorhabditis...
WP_010884791 479 E--------V--GKKVFIEKKDApsRENDEMIREFKEE-SKGKGAVLFGVMGGRNSEGQDYSGDEMNGVILVGIPY---- 543  Pyrococcus hor...
P26659       625 --QYTESRVLKARLEFLRDTYQIRE-A----DFLTFDAMRHAAQCLGRVLRGKDDHGIMVLADKRYGRsdKRTKLPKWIQ 697  Schizosaccharo...
P06839       628 --QYTESRILKARLEFMRENYRIRE-N----DFLSFDAMRHAAQCLGRVLRGKDDYGVMVLADRRFSR--KRSQLPKWIA 698  Saccharomyces ...
AAA85822     626 --VYTQSRILKARLEYLRDQFQIRE-N----DFLTFDAMRHAAQCLGRAIRGKTDYGLMIFADKRYARsdKRGKLPRWIQ 698  southern platy...
AAB62733     619 --INTESKVLRARLEFLRDRYQIRE-N----EFLTFDAMRTASQCVGRVIRGKSDYGIMIFADKRYNRldKRNKLPQWIL 691  Dictyostelium ...
CAA88959     751 ---NKTSVELRERMKFLDTQMPNGG-N----LLYESLCMHAVNQAIGRAIRHRRDYAAVYLFDDRYAKesTRRKLSTWIG 822  Caenorhabditis...
CAB16287     742 dvEWQAKVSYVEEKAKEKGINAKQA-Sq---EFYENTCMRAVNQSIGRAIRHRDDYASIILLDSRYNRssIQRKLPNWLS 817  fission yeast
P22516       755 sgELIVKRKHLAAKIMKSGGTEEEA-SratkEFMENICMKAVNQSVGRAIRHANDYANIYLLDVRYNRpnFRKKLSRWVQ 833  Saccharomyces ...
NP_492769    670 deRVVLKKMYLDDLMGRKDTKSERQsSq---DWYQMEAFRAVNQAIGRVLRHKDDFGTVVLMDTRYAs-aKPEMFPKWLR 745  Caenorhabditis...
WP_010884791 544 ---ARPTPRVQAQTRYFEKKFPGKG-Ry---YGYILPAHRKLAQAAGRVHRSENEKGSIVILDYRVLWknVKKDLPDWMV 616  Pyrococcus hor...
P26659       698 QYITEGATNLstdMSLALA 716  Schizosaccharomyces pombe 972h-
P06839       699 QGLSDADLNLstdMAISNT 717  Saccharomyces cerevisiae S288c
AAA85822     699 EHINDGSLNLtvdEAVQLS 717  southern platyfish
AAB62733     692 QFCQPQHLNLstdMAISLS 710  Dictyostelium discoideum
CAA88959     823 DRTQVKLGFG---EIIRKT 838  Caenorhabditis elegans
CAB16287     818 KNIHSSPNFG---PAIRQL 833  fission yeast
P22516       834 DSINSEHTTH---QVISST 849  Saccharomyces cerevisiae S288c
NP_492769    746 NTISRSDTDG---CALKts 761  Caenorhabditis elegans
WP_010884791 617 ETMIPVTLPT---LRIKLR 632  Pyrococcus horikoshii
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