|
Name |
Accession |
Description |
Interval |
E-value |
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
7-1087 |
0e+00 |
|
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. 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: 273172 [Multi-domain] Cd Length: 1087 Bit Score: 1210.73 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 7 LGPLPREG-TTTVLEASAGTGKTFALAGLVTRYLAET-AATLDEMLLITFNRAASRELRERVRGQIVEAVGALQGdAPPS 84
Cdd:TIGR00609 1 LDPLTIPLnGTFLIEASAGTGKTFTIAQLYLRLLLEGgPLTVEEILVVTFTNAATEELKTRIRGRIHQALRALKA-ALTS 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 85 GELVEHLLRGSDAERA-QKRSRLRDALANFDAATIATTHEFCGSVLKSLGVAGDNAADVELKESLTDLVTEIVDDRYLAN 163
Cdd:TIGR00609 80 QELPEPLKEAIQDEKVkQAITRLRNALATMDEAAIYTIHGFCQRMLEQHAFESDEIFDVELIEDESLLLAEITKDFWRRN 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 164 FGRQETDPELTYAEALALALAVVDDPCAQLRPPDP--------------------------------------------E 199
Cdd:TIGR00609 160 FYNLPFDIAQIVLKTKKSPQAVLTQILADLLLQSYlafpsppldleqlikwheqiykdldkldhavfeeidklnaernnL 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 200 PGSKAAVRLRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAADSP-ARDRMRERWRIVLVDEFQDTDPMQWRVLERA 278
Cdd:TIGR00609 240 FCLKDRVFLTLLKEVQEELKKEKKRRREIGFDDLLSRLETALKSAEGEkLAQAIREQYPIALIDEFQDTDPQQYRIFSKL 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 279 FSRHS--ALILIGDPKQAIYGFRGGDIHTYLKAAGTADARYTLGVNWRSDRALVESLQTVLRDAT----LGHADIVVRGT 352
Cdd:TIGR00609 320 FIAQKetSLFLIGDPKQAIYSFRGADIFTYLQAKSKADARYTLGTNWRSTPALVGSLNKLFSLISnpflEKPIFIPVLAH 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 353 DAHHAGHRLASAPRPAPFRLRVVKRHTLGYDGTAHVPIEALRRHIPDDLAADVAALLASGATFAGRPVVAADIAVIVEHH 432
Cdd:TIGR00609 400 QKNSKGSFVINGQEQPPIHFFTTEVESEGVDDYRQTIAQKCAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGR 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 433 KDARACRNALAEAGIPAIYTGDTD-VFASQAAKDWLCLLEAFDAPQRSGLVRAAACTMFFGETAESLAAEGDA--LTDRV 509
Cdd:TIGR00609 480 KEANQIRKALKKAQIPSVYLSDKSsVFATEEAQELLALLEALLEPENEGTLRAALASSIFGLSALELETLNQDeiTWERV 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 510 AGTLREWADHARHRGVAAVFQAAQLA-GMGRRVLSQRGGERDLTDLAHIAQLLHEAAHRERLGLPGLRDWLRRQAKAGAg 588
Cdd:TIGR00609 560 VEKFREYHDIWRKIGVLAMFQRLMLEkGIGERLLSQPGGERILTNLLHLAELLQEAAHQERNKLSLLRWLEDQISNEEE- 638
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 589 PPEHNRRLDSDAAAVQIMTVFVAKGLQFPIVYLPFAFNRNVRSDDILLYHDDGTRCLYiggkdGGAQRRTVEGLNRVEAA 668
Cdd:TIGR00609 639 EEEEIIRLESDAELVKIVTIHKSKGLEYPIVFLPFITDAKKSNFASLHDQHSHEYQLY-----DFNQSEENQKLARVERL 713
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 669 HDNLRLTYVALTRAQSQVVAWWAPTFDEVNGGLSRLLRGRRPGQSQVPDRCTP-RVTDEQAWAVFAQweAAGGPSVEESV 747
Cdd:TIGR00609 714 AEDLRLLYVALTRAKKQLFIGIAPLITSKLSNLAYSALHNSALGYQKQDGETDnITGLKQCLAALAD--PAGISSIPAKP 791
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 748 IGARSSLEKPVPVPGFEVRHFHRRIDTTWRRTSYSDLVRGSEAVTvtsEPAAGGRADEVEIAVVAAPgsgadltsplaAL 827
Cdd:TIGR00609 792 IGANSSKKEPASTALLEARTFHRRIRENWRITSFSSLKELEEAVT---EEPAPGLDYEVSSLEISAQ-----------DF 857
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 828 PSGASFGSLVHAVLETadpAAPDLAAELEAQVRRHAPWWTVDVDHAQLAPELARALLPMHDTPLGPaAAALTLRQIGVRD 907
Cdd:TIGR00609 858 PKGKKTGTLLHAILES---LIFSQAADLEKQNNLIAEKLKKTGLEGLWEPELQEWLEKMLNTPLTF-SRAITLSQIDPED 933
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 908 RLRELDFEMPLAGGDLRGRSPDVSLAdvgellashlpgddplspYADRLGSAGLGDQPLRGYLAGSIDVVLRLPGqRYLV 987
Cdd:TIGR00609 934 RQREMEFLLPINPEFQKQKLNFVIRA------------------YPDRAGSPDLHFQLLRGLLKGFIDLVFEHNG-RYYI 994
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 988 VDYKTNHLGDTAADYGFERLTEAMLHSDYPLQALLYVVVLHRFLRWRQRDYAPARHLGGVLYLFVRGMCGAatpvtagHP 1067
Cdd:TIGR00609 995 LDYKSNWLGKDASDYSPEALTEAILKERYDLQYLIYTLALHRYLRKRLKDYDYERHFGGVIYLFLRGIDGN-------KG 1067
|
1130 1140
....*....|....*....|
gi 490002425 1068 AGVFTWNPPTALVVALSDLL 1087
Cdd:TIGR00609 1068 NGIFFWNPPANLIDLLKELF 1087
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
10-1054 |
1.29e-135 |
|
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440692 [Multi-domain] Cd Length: 866 Bit Score: 431.69 E-value: 1.29e-135
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 10 LPREGTTtVLEASAGTGKTFALAGLVTRYLAETAATLDEMLLITFNRAASRELRERVRGQIVEAvgALQGDAppsgelve 89
Cdd:COG1074 15 DPLGGSV-LVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIRERLAEA--ADLEDP-------- 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 90 hllrgSDAERAQKRSRLRDALANFDAATIATTHEFCGSVLKSLGVAGDNAADVELKESLTD-LVTEIVDD---------- 158
Cdd:COG1074 84 -----DLEELARARRRLARALENLDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEAlLLEEAVDDllreayapld 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 159 -----RYLANFGR--------------------------QETDPELTYAEALALALAVVDDPCAQLRPPDPEpgsKAAVR 207
Cdd:COG1074 159 alalaRLLDAFGRdddsleelllalyklrsrpdwleelaELDEALEALREALLKAKEALAALREALAAAAAP---LLAAL 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 208 LRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAADSPA-RDRMRERWRIVLVDEFQDTDPMQWRVLER----AFSRH 282
Cdd:COG1074 236 LRLLAAVLARYERRKRERGLLDFDDLLHRALRLLRDEDAPWvAERLRERYRHILVDEFQDTSPLQWEILRRlageALADG 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 283 SALILIGDPKQAIYGFRGGDIHTYLKAAGTADAR-----YTLGVNWRSDRALVESLQTVLRDA-TLGHADIVVRGTDAHH 356
Cdd:COG1074 316 RTLFLVGDPKQSIYRFRGADPELFLEARRALEGRvdgerLTLTTNFRSTPEVVDAVNALFAQLmGAGFGEIPYEPVEALR 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 357 AGhrlasapRPAPFRLRVVKRHTLGYDGTAHVPIEALRRHIpddlaadvAALLASGATFAG--RPVVAADIAVIVEHHKD 434
Cdd:COG1074 396 PG-------AYPAVELWPLEPDDVSEEDAREREARAVAARI--------RRLLAEGTTVEGggRPVRPGDIAVLVRTRSE 460
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 435 ARACRNALAEAGIPAIYTGDTDVFASQAAKDWLCLLEAFDAPQRSGLVRAAACTMFFGETAESLAA-----EGDALTD-- 507
Cdd:COG1074 461 AAAIARALKAAGIPVAASDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDEDLAAlaadrKGESLWEal 540
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 508 -------RVAGTLREWADHARHRGVAAVFQAA-QLAGMGRRVLSQRGGERDLTDLAHIAQLLHEAAHRER---LGLPGLR 576
Cdd:COG1074 541 rayerlaRALERLRALRELARRLGLAELLERLlEETGLLERLLALPGGERRLANLLHLDELLQLALEYEQtggPGLAGFL 620
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 577 DWLRRQAKagAGPPEHNRRLDSDAAAVQIMTVFVAKGLQFPIVYLPFAFNRNVRsddillyhddgtrclyiggkdggaqr 656
Cdd:COG1074 621 RWLERLIE--DGGDEEKRRLESDADAVRIMTIHKSKGLEFPVVFLPALRERARA-------------------------- 672
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 657 rtveglnrvEAAHDNLRLTYVALTRAQSQVVAWWAPTFDEVNGGLSRLlrgrrpgqsqvpdrctprvtdeqawavfaqwe 736
Cdd:COG1074 673 ---------EELAEELRLLYVALTRARDRLVLSGAVKKKDAEKESSWL-------------------------------- 711
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 737 aaggpsveesvigarsslekpvpvpgfevrhfhrridttwrrtsysdlvrgseavtvtsepaaggradeveiavvaapgs 816
Cdd:COG1074 --------------------------------------------------------------------------------
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 817 gadltsplaalpsgASFGSLVHAVLETadpAAPDLAAELEAQVRRHAPWWTVDvdhAQLAPELARALLPMHDTPLgpaaa 896
Cdd:COG1074 712 --------------ARRGTLVHRLLEH---LDFSAPAELRAALARLLARGGLD---EEEAEALAEALLAFLATPL----- 766
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 897 altLRQI-GVRDRLRELDFEMPLAGgdlrgrspdvsladvgellashlpgddplspyadrlgsaglgdQPLRGYLAGSID 975
Cdd:COG1074 767 ---LAELfAAAEVLREVPFLLPDLY-------------------------------------------RGLGGLLKGRID 800
|
1050 1060 1070 1080 1090 1100 1110
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490002425 976 VVLRLPGqRYLVVDYKTNHLGDTAADYGFERlteamlhsdYPLQALLYVVVLHRFLRWRQrdyaparhLGGVLYLFVRG 1054
Cdd:COG1074 801 LVFEDDG-RVYIVDYKTNRLGPDDEEYLPER---------YRLQLALYALALERLLPGRP--------VRAGLYFTDRG 861
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
1-1086 |
4.15e-100 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 343.11 E-value: 4.15e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 1 MDRFELLGP--LPREGTTtVLEASAGTGKTFALAGLVTRYL---AETAA-----TLDEMLLITFNRAASRELRERVRGQI 70
Cdd:PRK10876 3 SDVAETLDPlrLPLQGER-LIEASAGTGKTFTIAALYLRLLlglGGSAAfprplTVEEILVVTFTEAATEELRGRIRSNI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 71 VE-AVGALQGDapPSGELVEHLLrgsdAERAQKRSRLRDALA---NFDAATIATTHEFCGSVLK---------------- 130
Cdd:PRK10876 82 HElRIACLREE--TDNPLYQRLL----AEIDDKAQAAQWLLLaerQMDEAAIFTIHGFCQRMLNlnafesgmlfeqqlie 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 131 ---------------------SLGVA--------GDNA--ADV---------------------------------ELK- 145
Cdd:PRK10876 156 desllryqacadfwrrhcyplPREIArvvfqewkGPEAllKDIsrylqgeapvikapppddetlasrheqivaridAVKq 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 146 ---ESLTDLVTEI----VDDR-----YLANF-------GRQET-DPELTYAEALALALAVVDDPCAQLRPPDP------- 198
Cdd:PRK10876 236 qwrEAVGELDALIessgVDRRsynskNLPKWlekisawAEEETnSYQLPKELEKFSQRFLLEKTKKGETPQHPlfeaidq 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 199 ---EPGS-KAAVRLRFAAEVLEELERRKgRLRAQ-GFNDLLIRLATALEAADSPA-RDRMRERWRIVLVDEFQDTDPMQW 272
Cdd:PRK10876 316 llaEPLSlRDLVITRALAEIRETVAQEK-RRRGElGFDDLLSRLDSALQSEGGEAlAAAIRTRYPVAMIDEFQDTDPQQY 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 273 RVLERAFSRH--SALILIGDPKQAIYGFRGGDIHTYLKAAGTADARYTLGVNWRSDRALVES---LQTVLRDATLGHAD- 346
Cdd:PRK10876 395 RIFRRIYRHQpeTALLLIGDPKQAIYAFRGADIFTYMKARSEVSAHYTLDTNWRSAPGMVNSvnkLFSQTDDPFLFREIp 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 347 -IVVRGTDAHHAGH-RLASAPRPApFRLRVVKRHTLG---YDGT-AHVPIEALRRHIPDDLAADVAALLASGAtfagRPV 420
Cdd:PRK10876 475 fIPVKAAGKNQALRfVVKGETQPA-MKFWLMEGEGVGvgdYQQTmAQQCAAQIRDWLQAGQRGEALLMNGDDS----RPV 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 421 VAADIAVIVEHHKDARACRNALAEAGIPAIYTGDTD-VFASQAAKDWLCLLEAFDAPQRSGLVRAAACTMFFGETAESLA 499
Cdd:PRK10876 550 RASDITVLVRSRQEAALIRDALTLLAIPSVYLSNRDsVFETLEAQEMLWLLQAVLAPERERTLRSALATSMMGLDALDID 629
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 500 AEG------DALTDRVAGTLREWadhaRHRGVA----AVFQAAQLAgmgRRVLSQRGGERDLTDLAHIAQLLHEAA---- 565
Cdd:PRK10876 630 ALNnderawDALVEEFDGYRQIW----RKRGVLpmlrALMSARNIA---ENLLATAGGERRLTDILHIGELLQEASsqld 702
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 566 --HrerlglpGLRDWLRRQ-AKAGAGPPEHNRRLDSDAAAVQIMTVFVAKGLQFPIVYLPFAfnRNVRSDDILLYHDdgt 642
Cdd:PRK10876 703 seH-------ALVRWLAQQiLEPDSQASSQQLRLESDKHLVQIVTIHKSKGLEYPLVWLPFI--TNFRVQDQAFYHD--- 770
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 643 RCLYIGGKDGGAQRRTVEgLNRVEAAHDNLRLTYVALTRAQSQVVAWWAPTF----------DEVNGGLSRLLRGRRPGQ 712
Cdd:PRK10876 771 RHSFEAVLDLNAAEESVA-LAEEERLAEDLRLLYVALTRSVWHCSLGVAPLVrrrrkkkgetDLHQSALGYLLQKGEPGD 849
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 713 SQVPDRC------------TPRVTDEQAWAVfaqweaaggpsveesvigarssleKPVPVPGFEVRHFHRRIDTTWRRTS 780
Cdd:PRK10876 850 AAGLRAClealcdddialqTAQETDNQPWQP------------------------QDASLAELSARTLQRLLQDNWRVTS 905
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 781 YSDLVRGSEAVTVTSEPaaggRADeveiavVAAPGSGADLTSPLAA---LPSGASFGSLVHAVLETADPAAPDLAAELEA 857
Cdd:PRK10876 906 YSGLQQHGHSIAQDLLP----RLD------VDAAGEGSVVEEPQLTphtFPRGASPGTFLHSLFEDLDFTQPVDPEWLQE 975
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 858 QVRR--HAPWWtvdvdhaqlAPELARALLPMHDTPLGPaaAALTLRQIGVRDRLRELDFEMPLAgGDLRGRSPDvsladv 935
Cdd:PRK10876 976 QLELqgFEEQW---------EPVLTQWITAVLQTPLNE--TGVSLSQLSARDKQVEMQFYLPID-QPLTASQLD------ 1037
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 936 gELLASHlpgdDPLSPyadrlGSAGLGDQPLRGYLAGSIDVVLRLPGqRYLVVDYKTNHLGDTAADYGFERLTEAMLHSD 1015
Cdd:PRK10876 1038 -ALIRQY----DPLSA-----GCPPLDFMQVRGMLKGFIDLVFRWQG-RYYLLDYKSNWLGEDSSAYTQEAMAQAMQAHR 1106
|
1210 1220 1230 1240 1250 1260 1270
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490002425 1016 YPLQALLYVVVLHRFLRWRQRDYAPARHLGGVLYLFVRGMCGAatpvTAGHpaGVFTWNPPTALVVALSDL 1086
Cdd:PRK10876 1107 YDLQYQLYTLALHRYLRHRLADYDYQRHFGGVIYLFLRGVDKE----HPGQ--GIFTTRPNAALIDGLDEL 1171
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
14-309 |
4.63e-67 |
|
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.
Pssm-ID: 395462 [Multi-domain] Cd Length: 267 Bit Score: 226.36 E-value: 4.63e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 14 GTTTVLEASAGTGKTFALAGLVTRYLAETAATLDEMLLITFNRAASRELRERVRGQIveavgalqgdappsgelvehllr 93
Cdd:pfam00580 13 GGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLL----------------------- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 94 gsdaeraqkrsrlrdALANFDAATIATTHEFCGSVLKSLGVAGDNAADVELKESLtDLVTEIVDDRYlanFGRQETDPEL 173
Cdd:pfam00580 70 ---------------GKAELSELNISTFHSFCLRILRKYANRIGLLPNFSILDEL-DQLALLKELLE---KDRLNLDPKL 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 174 TYAEALALAlaVVDDPCAQLRPPDPEPGsKAAVRLRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAaDSPARDRMR 253
Cdd:pfam00580 131 LRKLELKEL--ISKAKNRLLSPEELQQG-AADPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRS-DPELLEAYR 206
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*.
gi 490002425 254 ERWRIVLVDEFQDTDPMQWRVLERAFSRHSALILIGDPKQAIYGFRGGDIHTYLKA 309
Cdd:pfam00580 207 ERFKYILVDEFQDTNPIQYRLLKLLAGGHENLFLVGDPDQSIYGFRGADIENILKF 262
|
|
| RecB_C-like |
cd22352 |
C-terminal nuclease domain of exodeoxyribonuclease V subunit RecB and similar proteins; ... |
776-1084 |
4.30e-63 |
|
C-terminal nuclease domain of exodeoxyribonuclease V subunit RecB and similar proteins; Exodeoxyribonuclease V subunit beta (RecB) is a helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair; it binds to DSBs and unwinds DNA via a rapid and highly processive ATP-dependent bidirectional helicase. The C-terminal PDDEXK nuclease domain belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.
Pssm-ID: 411756 [Multi-domain] Cd Length: 215 Bit Score: 213.30 E-value: 4.30e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 776 WRRTSYSDLVRGSEAvtvtsEPAAGGRADEVEIAVVAAPGSgaDLTSPLAALPSGASFGSLVHAVLETAdpaapdlaael 855
Cdd:cd22352 1 WRITSFSSLTRGLGG-----KAAEASHDEEPDEDEEAAPEE--ADEEGIDALPRGAKTGTFLHEILENI----------- 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 856 eaqvrrhapwwtvdvdhaqlapelarallpmhdtplgpaaaaltlrqigvrDRLRELDFEMPLAGGdlrgrspdVSLADV 935
Cdd:cd22352 63 ---------------------------------------------------DRLSEMEFYLPLSDK--------LDAEAL 83
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 936 GELLASHLPGDDPLSpyadrlgsagLGDQPLRGYLAGSIDVVLRLPGqRYLVVDYKTNHLGDTAADYGFERLTEAMLHSD 1015
Cdd:cd22352 84 NELLRQHGPPGALPP----------LSFETLRGFLKGFIDLVFEHEG-RYYILDYKSNYLGDYLEDYSPEALEAAMLEHH 152
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490002425 1016 YPLQALLYVVVLHRFLRWRQRDYAPARHLGGVLYLFVRGMCGaatpvtAGHPAGVFTWNPPTALVVALS 1084
Cdd:cd22352 153 YDLQYLLYTLALHRYLKQRLPDYDYERHFGGVYYLFLRGMDP------EGPGNGVFFDRPSAELIEALD 215
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| recB |
TIGR00609 |
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ... |
7-1087 |
0e+00 |
|
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. 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: 273172 [Multi-domain] Cd Length: 1087 Bit Score: 1210.73 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 7 LGPLPREG-TTTVLEASAGTGKTFALAGLVTRYLAET-AATLDEMLLITFNRAASRELRERVRGQIVEAVGALQGdAPPS 84
Cdd:TIGR00609 1 LDPLTIPLnGTFLIEASAGTGKTFTIAQLYLRLLLEGgPLTVEEILVVTFTNAATEELKTRIRGRIHQALRALKA-ALTS 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 85 GELVEHLLRGSDAERA-QKRSRLRDALANFDAATIATTHEFCGSVLKSLGVAGDNAADVELKESLTDLVTEIVDDRYLAN 163
Cdd:TIGR00609 80 QELPEPLKEAIQDEKVkQAITRLRNALATMDEAAIYTIHGFCQRMLEQHAFESDEIFDVELIEDESLLLAEITKDFWRRN 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 164 FGRQETDPELTYAEALALALAVVDDPCAQLRPPDP--------------------------------------------E 199
Cdd:TIGR00609 160 FYNLPFDIAQIVLKTKKSPQAVLTQILADLLLQSYlafpsppldleqlikwheqiykdldkldhavfeeidklnaernnL 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 200 PGSKAAVRLRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAADSP-ARDRMRERWRIVLVDEFQDTDPMQWRVLERA 278
Cdd:TIGR00609 240 FCLKDRVFLTLLKEVQEELKKEKKRRREIGFDDLLSRLETALKSAEGEkLAQAIREQYPIALIDEFQDTDPQQYRIFSKL 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 279 FSRHS--ALILIGDPKQAIYGFRGGDIHTYLKAAGTADARYTLGVNWRSDRALVESLQTVLRDAT----LGHADIVVRGT 352
Cdd:TIGR00609 320 FIAQKetSLFLIGDPKQAIYSFRGADIFTYLQAKSKADARYTLGTNWRSTPALVGSLNKLFSLISnpflEKPIFIPVLAH 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 353 DAHHAGHRLASAPRPAPFRLRVVKRHTLGYDGTAHVPIEALRRHIPDDLAADVAALLASGATFAGRPVVAADIAVIVEHH 432
Cdd:TIGR00609 400 QKNSKGSFVINGQEQPPIHFFTTEVESEGVDDYRQTIAQKCAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGR 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 433 KDARACRNALAEAGIPAIYTGDTD-VFASQAAKDWLCLLEAFDAPQRSGLVRAAACTMFFGETAESLAAEGDA--LTDRV 509
Cdd:TIGR00609 480 KEANQIRKALKKAQIPSVYLSDKSsVFATEEAQELLALLEALLEPENEGTLRAALASSIFGLSALELETLNQDeiTWERV 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 510 AGTLREWADHARHRGVAAVFQAAQLA-GMGRRVLSQRGGERDLTDLAHIAQLLHEAAHRERLGLPGLRDWLRRQAKAGAg 588
Cdd:TIGR00609 560 VEKFREYHDIWRKIGVLAMFQRLMLEkGIGERLLSQPGGERILTNLLHLAELLQEAAHQERNKLSLLRWLEDQISNEEE- 638
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 589 PPEHNRRLDSDAAAVQIMTVFVAKGLQFPIVYLPFAFNRNVRSDDILLYHDDGTRCLYiggkdGGAQRRTVEGLNRVEAA 668
Cdd:TIGR00609 639 EEEEIIRLESDAELVKIVTIHKSKGLEYPIVFLPFITDAKKSNFASLHDQHSHEYQLY-----DFNQSEENQKLARVERL 713
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 669 HDNLRLTYVALTRAQSQVVAWWAPTFDEVNGGLSRLLRGRRPGQSQVPDRCTP-RVTDEQAWAVFAQweAAGGPSVEESV 747
Cdd:TIGR00609 714 AEDLRLLYVALTRAKKQLFIGIAPLITSKLSNLAYSALHNSALGYQKQDGETDnITGLKQCLAALAD--PAGISSIPAKP 791
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 748 IGARSSLEKPVPVPGFEVRHFHRRIDTTWRRTSYSDLVRGSEAVTvtsEPAAGGRADEVEIAVVAAPgsgadltsplaAL 827
Cdd:TIGR00609 792 IGANSSKKEPASTALLEARTFHRRIRENWRITSFSSLKELEEAVT---EEPAPGLDYEVSSLEISAQ-----------DF 857
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 828 PSGASFGSLVHAVLETadpAAPDLAAELEAQVRRHAPWWTVDVDHAQLAPELARALLPMHDTPLGPaAAALTLRQIGVRD 907
Cdd:TIGR00609 858 PKGKKTGTLLHAILES---LIFSQAADLEKQNNLIAEKLKKTGLEGLWEPELQEWLEKMLNTPLTF-SRAITLSQIDPED 933
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 908 RLRELDFEMPLAGGDLRGRSPDVSLAdvgellashlpgddplspYADRLGSAGLGDQPLRGYLAGSIDVVLRLPGqRYLV 987
Cdd:TIGR00609 934 RQREMEFLLPINPEFQKQKLNFVIRA------------------YPDRAGSPDLHFQLLRGLLKGFIDLVFEHNG-RYYI 994
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 988 VDYKTNHLGDTAADYGFERLTEAMLHSDYPLQALLYVVVLHRFLRWRQRDYAPARHLGGVLYLFVRGMCGAatpvtagHP 1067
Cdd:TIGR00609 995 LDYKSNWLGKDASDYSPEALTEAILKERYDLQYLIYTLALHRYLRKRLKDYDYERHFGGVIYLFLRGIDGN-------KG 1067
|
1130 1140
....*....|....*....|
gi 490002425 1068 AGVFTWNPPTALVVALSDLL 1087
Cdd:TIGR00609 1068 NGIFFWNPPANLIDLLKELF 1087
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
10-1054 |
1.29e-135 |
|
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440692 [Multi-domain] Cd Length: 866 Bit Score: 431.69 E-value: 1.29e-135
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 10 LPREGTTtVLEASAGTGKTFALAGLVTRYLAETAATLDEMLLITFNRAASRELRERVRGQIVEAvgALQGDAppsgelve 89
Cdd:COG1074 15 DPLGGSV-LVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIRERLAEA--ADLEDP-------- 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 90 hllrgSDAERAQKRSRLRDALANFDAATIATTHEFCGSVLKSLGVAGDNAADVELKESLTD-LVTEIVDD---------- 158
Cdd:COG1074 84 -----DLEELARARRRLARALENLDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEAlLLEEAVDDllreayapld 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 159 -----RYLANFGR--------------------------QETDPELTYAEALALALAVVDDPCAQLRPPDPEpgsKAAVR 207
Cdd:COG1074 159 alalaRLLDAFGRdddsleelllalyklrsrpdwleelaELDEALEALREALLKAKEALAALREALAAAAAP---LLAAL 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 208 LRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAADSPA-RDRMRERWRIVLVDEFQDTDPMQWRVLER----AFSRH 282
Cdd:COG1074 236 LRLLAAVLARYERRKRERGLLDFDDLLHRALRLLRDEDAPWvAERLRERYRHILVDEFQDTSPLQWEILRRlageALADG 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 283 SALILIGDPKQAIYGFRGGDIHTYLKAAGTADAR-----YTLGVNWRSDRALVESLQTVLRDA-TLGHADIVVRGTDAHH 356
Cdd:COG1074 316 RTLFLVGDPKQSIYRFRGADPELFLEARRALEGRvdgerLTLTTNFRSTPEVVDAVNALFAQLmGAGFGEIPYEPVEALR 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 357 AGhrlasapRPAPFRLRVVKRHTLGYDGTAHVPIEALRRHIpddlaadvAALLASGATFAG--RPVVAADIAVIVEHHKD 434
Cdd:COG1074 396 PG-------AYPAVELWPLEPDDVSEEDAREREARAVAARI--------RRLLAEGTTVEGggRPVRPGDIAVLVRTRSE 460
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 435 ARACRNALAEAGIPAIYTGDTDVFASQAAKDWLCLLEAFDAPQRSGLVRAAACTMFFGETAESLAA-----EGDALTD-- 507
Cdd:COG1074 461 AAAIARALKAAGIPVAASDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDEDLAAlaadrKGESLWEal 540
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 508 -------RVAGTLREWADHARHRGVAAVFQAA-QLAGMGRRVLSQRGGERDLTDLAHIAQLLHEAAHRER---LGLPGLR 576
Cdd:COG1074 541 rayerlaRALERLRALRELARRLGLAELLERLlEETGLLERLLALPGGERRLANLLHLDELLQLALEYEQtggPGLAGFL 620
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 577 DWLRRQAKagAGPPEHNRRLDSDAAAVQIMTVFVAKGLQFPIVYLPFAFNRNVRsddillyhddgtrclyiggkdggaqr 656
Cdd:COG1074 621 RWLERLIE--DGGDEEKRRLESDADAVRIMTIHKSKGLEFPVVFLPALRERARA-------------------------- 672
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 657 rtveglnrvEAAHDNLRLTYVALTRAQSQVVAWWAPTFDEVNGGLSRLlrgrrpgqsqvpdrctprvtdeqawavfaqwe 736
Cdd:COG1074 673 ---------EELAEELRLLYVALTRARDRLVLSGAVKKKDAEKESSWL-------------------------------- 711
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 737 aaggpsveesvigarsslekpvpvpgfevrhfhrridttwrrtsysdlvrgseavtvtsepaaggradeveiavvaapgs 816
Cdd:COG1074 --------------------------------------------------------------------------------
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 817 gadltsplaalpsgASFGSLVHAVLETadpAAPDLAAELEAQVRRHAPWWTVDvdhAQLAPELARALLPMHDTPLgpaaa 896
Cdd:COG1074 712 --------------ARRGTLVHRLLEH---LDFSAPAELRAALARLLARGGLD---EEEAEALAEALLAFLATPL----- 766
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 897 altLRQI-GVRDRLRELDFEMPLAGgdlrgrspdvsladvgellashlpgddplspyadrlgsaglgdQPLRGYLAGSID 975
Cdd:COG1074 767 ---LAELfAAAEVLREVPFLLPDLY-------------------------------------------RGLGGLLKGRID 800
|
1050 1060 1070 1080 1090 1100 1110
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490002425 976 VVLRLPGqRYLVVDYKTNHLGDTAADYGFERlteamlhsdYPLQALLYVVVLHRFLRWRQrdyaparhLGGVLYLFVRG 1054
Cdd:COG1074 801 LVFEDDG-RVYIVDYKTNRLGPDDEEYLPER---------YRLQLALYALALERLLPGRP--------VRAGLYFTDRG 861
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
1-1086 |
4.15e-100 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 343.11 E-value: 4.15e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 1 MDRFELLGP--LPREGTTtVLEASAGTGKTFALAGLVTRYL---AETAA-----TLDEMLLITFNRAASRELRERVRGQI 70
Cdd:PRK10876 3 SDVAETLDPlrLPLQGER-LIEASAGTGKTFTIAALYLRLLlglGGSAAfprplTVEEILVVTFTEAATEELRGRIRSNI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 71 VE-AVGALQGDapPSGELVEHLLrgsdAERAQKRSRLRDALA---NFDAATIATTHEFCGSVLK---------------- 130
Cdd:PRK10876 82 HElRIACLREE--TDNPLYQRLL----AEIDDKAQAAQWLLLaerQMDEAAIFTIHGFCQRMLNlnafesgmlfeqqlie 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 131 ---------------------SLGVA--------GDNA--ADV---------------------------------ELK- 145
Cdd:PRK10876 156 desllryqacadfwrrhcyplPREIArvvfqewkGPEAllKDIsrylqgeapvikapppddetlasrheqivaridAVKq 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 146 ---ESLTDLVTEI----VDDR-----YLANF-------GRQET-DPELTYAEALALALAVVDDPCAQLRPPDP------- 198
Cdd:PRK10876 236 qwrEAVGELDALIessgVDRRsynskNLPKWlekisawAEEETnSYQLPKELEKFSQRFLLEKTKKGETPQHPlfeaidq 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 199 ---EPGS-KAAVRLRFAAEVLEELERRKgRLRAQ-GFNDLLIRLATALEAADSPA-RDRMRERWRIVLVDEFQDTDPMQW 272
Cdd:PRK10876 316 llaEPLSlRDLVITRALAEIRETVAQEK-RRRGElGFDDLLSRLDSALQSEGGEAlAAAIRTRYPVAMIDEFQDTDPQQY 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 273 RVLERAFSRH--SALILIGDPKQAIYGFRGGDIHTYLKAAGTADARYTLGVNWRSDRALVES---LQTVLRDATLGHAD- 346
Cdd:PRK10876 395 RIFRRIYRHQpeTALLLIGDPKQAIYAFRGADIFTYMKARSEVSAHYTLDTNWRSAPGMVNSvnkLFSQTDDPFLFREIp 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 347 -IVVRGTDAHHAGH-RLASAPRPApFRLRVVKRHTLG---YDGT-AHVPIEALRRHIPDDLAADVAALLASGAtfagRPV 420
Cdd:PRK10876 475 fIPVKAAGKNQALRfVVKGETQPA-MKFWLMEGEGVGvgdYQQTmAQQCAAQIRDWLQAGQRGEALLMNGDDS----RPV 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 421 VAADIAVIVEHHKDARACRNALAEAGIPAIYTGDTD-VFASQAAKDWLCLLEAFDAPQRSGLVRAAACTMFFGETAESLA 499
Cdd:PRK10876 550 RASDITVLVRSRQEAALIRDALTLLAIPSVYLSNRDsVFETLEAQEMLWLLQAVLAPERERTLRSALATSMMGLDALDID 629
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 500 AEG------DALTDRVAGTLREWadhaRHRGVA----AVFQAAQLAgmgRRVLSQRGGERDLTDLAHIAQLLHEAA---- 565
Cdd:PRK10876 630 ALNnderawDALVEEFDGYRQIW----RKRGVLpmlrALMSARNIA---ENLLATAGGERRLTDILHIGELLQEASsqld 702
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 566 --HrerlglpGLRDWLRRQ-AKAGAGPPEHNRRLDSDAAAVQIMTVFVAKGLQFPIVYLPFAfnRNVRSDDILLYHDdgt 642
Cdd:PRK10876 703 seH-------ALVRWLAQQiLEPDSQASSQQLRLESDKHLVQIVTIHKSKGLEYPLVWLPFI--TNFRVQDQAFYHD--- 770
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 643 RCLYIGGKDGGAQRRTVEgLNRVEAAHDNLRLTYVALTRAQSQVVAWWAPTF----------DEVNGGLSRLLRGRRPGQ 712
Cdd:PRK10876 771 RHSFEAVLDLNAAEESVA-LAEEERLAEDLRLLYVALTRSVWHCSLGVAPLVrrrrkkkgetDLHQSALGYLLQKGEPGD 849
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 713 SQVPDRC------------TPRVTDEQAWAVfaqweaaggpsveesvigarssleKPVPVPGFEVRHFHRRIDTTWRRTS 780
Cdd:PRK10876 850 AAGLRAClealcdddialqTAQETDNQPWQP------------------------QDASLAELSARTLQRLLQDNWRVTS 905
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 781 YSDLVRGSEAVTVTSEPaaggRADeveiavVAAPGSGADLTSPLAA---LPSGASFGSLVHAVLETADPAAPDLAAELEA 857
Cdd:PRK10876 906 YSGLQQHGHSIAQDLLP----RLD------VDAAGEGSVVEEPQLTphtFPRGASPGTFLHSLFEDLDFTQPVDPEWLQE 975
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 858 QVRR--HAPWWtvdvdhaqlAPELARALLPMHDTPLGPaaAALTLRQIGVRDRLRELDFEMPLAgGDLRGRSPDvsladv 935
Cdd:PRK10876 976 QLELqgFEEQW---------EPVLTQWITAVLQTPLNE--TGVSLSQLSARDKQVEMQFYLPID-QPLTASQLD------ 1037
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 936 gELLASHlpgdDPLSPyadrlGSAGLGDQPLRGYLAGSIDVVLRLPGqRYLVVDYKTNHLGDTAADYGFERLTEAMLHSD 1015
Cdd:PRK10876 1038 -ALIRQY----DPLSA-----GCPPLDFMQVRGMLKGFIDLVFRWQG-RYYLLDYKSNWLGEDSSAYTQEAMAQAMQAHR 1106
|
1210 1220 1230 1240 1250 1260 1270
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490002425 1016 YPLQALLYVVVLHRFLRWRQRDYAPARHLGGVLYLFVRGMCGAatpvTAGHpaGVFTWNPPTALVVALSDL 1086
Cdd:PRK10876 1107 YDLQYQLYTLALHRYLRHRLADYDYQRHFGGVIYLFLRGVDKE----HPGQ--GIFTTRPNAALIDGLDEL 1171
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
14-309 |
4.63e-67 |
|
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.
Pssm-ID: 395462 [Multi-domain] Cd Length: 267 Bit Score: 226.36 E-value: 4.63e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 14 GTTTVLEASAGTGKTFALAGLVTRYLAETAATLDEMLLITFNRAASRELRERVRGQIveavgalqgdappsgelvehllr 93
Cdd:pfam00580 13 GGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLL----------------------- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 94 gsdaeraqkrsrlrdALANFDAATIATTHEFCGSVLKSLGVAGDNAADVELKESLtDLVTEIVDDRYlanFGRQETDPEL 173
Cdd:pfam00580 70 ---------------GKAELSELNISTFHSFCLRILRKYANRIGLLPNFSILDEL-DQLALLKELLE---KDRLNLDPKL 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 174 TYAEALALAlaVVDDPCAQLRPPDPEPGsKAAVRLRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAaDSPARDRMR 253
Cdd:pfam00580 131 LRKLELKEL--ISKAKNRLLSPEELQQG-AADPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRS-DPELLEAYR 206
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*.
gi 490002425 254 ERWRIVLVDEFQDTDPMQWRVLERAFSRHSALILIGDPKQAIYGFRGGDIHTYLKA 309
Cdd:pfam00580 207 ERFKYILVDEFQDTNPIQYRLLKLLAGGHENLFLVGDPDQSIYGFRGADIENILKF 262
|
|
| RecB_C-like |
cd22352 |
C-terminal nuclease domain of exodeoxyribonuclease V subunit RecB and similar proteins; ... |
776-1084 |
4.30e-63 |
|
C-terminal nuclease domain of exodeoxyribonuclease V subunit RecB and similar proteins; Exodeoxyribonuclease V subunit beta (RecB) is a helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair; it binds to DSBs and unwinds DNA via a rapid and highly processive ATP-dependent bidirectional helicase. The C-terminal PDDEXK nuclease domain belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.
Pssm-ID: 411756 [Multi-domain] Cd Length: 215 Bit Score: 213.30 E-value: 4.30e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 776 WRRTSYSDLVRGSEAvtvtsEPAAGGRADEVEIAVVAAPGSgaDLTSPLAALPSGASFGSLVHAVLETAdpaapdlaael 855
Cdd:cd22352 1 WRITSFSSLTRGLGG-----KAAEASHDEEPDEDEEAAPEE--ADEEGIDALPRGAKTGTFLHEILENI----------- 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 856 eaqvrrhapwwtvdvdhaqlapelarallpmhdtplgpaaaaltlrqigvrDRLRELDFEMPLAGGdlrgrspdVSLADV 935
Cdd:cd22352 63 ---------------------------------------------------DRLSEMEFYLPLSDK--------LDAEAL 83
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 936 GELLASHLPGDDPLSpyadrlgsagLGDQPLRGYLAGSIDVVLRLPGqRYLVVDYKTNHLGDTAADYGFERLTEAMLHSD 1015
Cdd:cd22352 84 NELLRQHGPPGALPP----------LSFETLRGFLKGFIDLVFEHEG-RYYILDYKSNYLGDYLEDYSPEALEAAMLEHH 152
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490002425 1016 YPLQALLYVVVLHRFLRWRQRDYAPARHLGGVLYLFVRGMCGaatpvtAGHPAGVFTWNPPTALVVALS 1084
Cdd:cd22352 153 YDLQYLLYTLALHRYLKQRLPDYDYERHFGGVYYLFLRGMDP------EGPGNGVFFDRPSAELIEALD 215
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
13-802 |
3.19e-37 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 150.47 E-value: 3.19e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 13 EGTTTVLeASAGTGKTFALAGLVTRYLAETAATLDEMLLITFNRAASRELRERVRGQIVEAVGALqgdappsgelvehll 92
Cdd:COG0210 19 EGPLLVL-AGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLARGL--------------- 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 93 rgsdaeraqkrsrlrdalanfdaaTIATTHEFCGSVLKslgvagDNAADVELKESLT--------DLVTEIVDDRYLANf 164
Cdd:COG0210 83 ------------------------WVGTFHSLALRILR------RHAELLGLPPNFTildgddqlRLIKELLKELGLDE- 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 165 gRQETDPELTYAEALalalaVVDDpcaQLRPPDPEPGSKAAVRLRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAa 244
Cdd:COG0210 132 -KRFPPRELLSLISR-----AKNE---GLTPEELAELLAADPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEE- 201
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 245 DSPARDRMRERWRIVLVDEFQDTDPMQWRVLERAFSRHSALILIGDPKQAIYGFRGGD---IHTYLKAAGTAdARYTLGV 321
Cdd:COG0210 202 NPEVLEKYQNRFRYILVDEYQDTNPAQYELLRLLAGDGRNLCVVGDDDQSIYGFRGADpenILRFEKDFPDA-KVIKLEQ 280
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 322 NWRSDralveslQTVLrDAtlghADIVVRgtdahHAGHRLA---SAPRPAPFRLRVVKRHTlGYDGTAHVpIEALRRHIp 398
Cdd:COG0210 281 NYRST-------QNIL-DA----ANAVIA-----NNPGRLGknlWTDNGEGEKVRLYVAPD-EEEEARFV-ADEIRELH- 340
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 399 ddlaadvaallasgatFAGRPvvAADIAVIVEHHKDARACRNALAEAGIPAIYTGDTDVFASQAAKDWLCLLEAFDAPQR 478
Cdd:COG0210 341 ----------------EEGVP--LSDIAVLYRTNAQSRALEEALRRAGIPYRVVGGLRFYERAEIKDLLAYLRLLANPDD 402
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 479 SGLVRAAACTMFFG--------------ETAESL------AAEGDALTDRVAGTLRE-------WADHARHRGVAAVFQA 531
Cdd:COG0210 403 DVALLRILNVPRRGigaatlerlreaarEEGISLlealrdLGELAGLSGRAAKALRRfaelleaLRAAAERLPLEELLEA 482
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 532 AqLAGMG-RRVLSQRGGERDLTDLAHIAQLLHEAA-HRERLGLPGLRDWLRRQAKagagpPEHNRRLDSDAAAVQIMTVF 609
Cdd:COG0210 483 L-LDESGyEEELREEAGEEAERRLENLEELVDAAArFEERNPGASLEAFLEELAL-----LSDLDAADEDEDAVTLMTLH 556
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 610 VAKGLQFPIVYLPFAfnrnvrSDDILlyhdDGTRclyiggkdggaqrrtveGLNRVEAAHDNLRLTYVALTRAQSQVVaw 689
Cdd:COG0210 557 AAKGLEFPVVFLVGL------EEGLF----PHQR-----------------SLDDEEELEEERRLFYVAITRARERLY-- 607
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 690 waptfdevnggLSRLLRGRRPGQSQ----------VPDRCTPRVTDEQAWAVFAQWEAAGGPSVEESVIGARSSLEKPVP 759
Cdd:COG0210 608 -----------LTYAASRRLWGETQdnepsrfldeLPEELLEWVRPKAEAAAAAASAAAALPASGAGAAALAAGAAAAAA 676
|
810 820 830 840
....*....|....*....|....*....|....*....|...
gi 490002425 760 VPGFEVRHFHRRIDTTWRRTSYSDLVRGSEAVTVTSEPAAGGR 802
Cdd:COG0210 677 AAGGGAAVAGAGLGRAAAAGGADGGAAGAGGGLAAVALTVLPA 719
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
21-308 |
9.54e-23 |
|
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350690 [Multi-domain] Cd Length: 189 Bit Score: 96.82 E-value: 9.54e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 21 ASAGTGKTFALAGLVTRYLAETAATLDEMLLITFNRAASRELRERVRgqiveavgalqgdappsgelvehllrgsdaera 100
Cdd:cd17932 19 AGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLR--------------------------------- 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 101 qkrSRLRDALANfdAATIATTHEFCGSVLkslgvagdnaadvelkesltdlvteivddrylanfgRQETDpeltyaeala 180
Cdd:cd17932 66 ---KLLGEQLAS--GVWIGTFHSFALRIL------------------------------------RRYGD---------- 94
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 181 lalavvddpcaqlrppdpepgskaavrlrfaaevleelerrkgrlraqgFNDLLIRLATALEAaDSPARDRMRERWRIVL 260
Cdd:cd17932 95 -------------------------------------------------FDDLLLYALELLEE-NPDVREKLQSRFRYIL 124
|
250 260 270 280
....*....|....*....|....*....|....*....|....*...
gi 490002425 261 VDEFQDTDPMQWRVLERAFSRHSALILIGDPKQAIYGFRGGDIHTYLK 308
Cdd:cd17932 125 VDEYQDTNPLQYELLKLLAGDGKNLFVVGDDDQSIYGFRGADPENILD 172
|
|
| addA_alphas |
TIGR02784 |
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, ... |
201-682 |
1.09e-18 |
|
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274298 [Multi-domain] Cd Length: 1135 Bit Score: 92.06 E-value: 1.09e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 201 GSKAAvrLRFAAEVLEELERRKGRLRAQGFNDLLIRLATALEAADSPARDRMRERWRI--VLVDEFQDTDPMQWRVLERA 278
Cdd:TIGR02784 336 RTLAA--LRLAARLLQRYARLKKARGLLDFNDLIERTVALLARPGAGAWVHYKLDRGIdhILVDEAQDTSPEQWDIIQAL 413
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 279 ----FSRHSA-------LILIGDPKQAIYGFRGGD----------IHTYLKAAGTADARYTLGVNWRSDRALVESLQTVL 337
Cdd:TIGR02784 414 aeefFSGEGArsgvertIFAVGDEKQSIYSFQGADperfaeerreFSRKVRAVGRKFEDLSLNYSFRSTPDVLAAVDLVF 493
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 338 RDATL---GHAdivvrgtDAHHAGHRLASAPRPAPFRL-RVVKRHTLGYDGTAHVPIEALRRHIPDDLAADVAALL---- 409
Cdd:TIGR02784 494 ADPENargLSA-------DSDAPVHEAFRDDLPGRVDLwDLISKEEGEEPEDWTDPVDELGERAPEVRLAERIAAEiraw 566
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 410 -ASGAT--FAGRPVVAADIAVIVEHHKD-ARACRNALAEAGIPAIYTGDTDVFASQAAKDWLCLLEAFDAPQRSGLVRAA 485
Cdd:TIGR02784 567 lDRGTPipGRGRAVRPGDILVLVRKRDAfFSALIRALKRRGIPVAGADRLKLTSHIAVKDLMALGRFVLQPEDDLSLAAL 646
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 486 ACTMFFGETAE---SLAA---EG---DALTDRVAG------TLREWADHARHRGVAAvFQAAQLAGMG--RRVLSQRGGE 548
Cdd:TIGR02784 647 LKSPLFGLDEDdlfRLAAgrsGGslwAALRRREAEfaatlaVLRDWLSLADFLTPFE-FYARLLGRDGgrRKLLARLGAE 725
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 549 -RDLTDlahiaQLLHEAAHRERLGLPGLR---DWLRrqakagAGPPEHNRRLDSDAAAVQIMTVFVAKGLQFPIVYLP-- 622
Cdd:TIGR02784 726 aEDILD-----EFLSQALAYERTGLPGLQaflSWLE------ADDPEIKREMDQARDEVRVMTVHGAKGLEAPVVFLVdt 794
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 490002425 623 --FAFNRNVRSDDILLYHDDGTRCLYIGGKD------GGAQRRTVEglnrvEAAHDNLRLTYVALTRA 682
Cdd:TIGR02784 795 gsKPFASQRAPLLLATGGSGGKAPLWRPASAfdpslsAAARERLKE-----RAEDEYRRLLYVAMTRA 857
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
207-348 |
1.16e-09 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 62.57 E-value: 1.16e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 207 RLRFAAEVLEELERRKGRLRAQGFNDllirlaTALEAADSPARDRMRER-------WRI--VLVDEFQDTDPMQWRVLER 277
Cdd:COG3973 418 LLARAAGWLSPEERALLLRPTRELKK------GRWTVADVALLDELAELlggpdrtWTYghVVVDEAQDLSPMQWRVLKR 491
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 490002425 278 AFSRHSALILiGDPKQAIYGFRGgdIHTY---LKAAGTADARY-TLGVNWRSDRALVESLQTVLRDATLGHADIV 348
Cdd:COG3973 492 RFPSASFTIV-GDLAQAIHPYRG--AESWeevLEPLGGDRARLvELTKSYRSTAEIMEFANRVLRAAGPDLPPPE 563
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
19-331 |
3.93e-09 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 60.75 E-value: 3.93e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 19 LEASAGTGKTFALAglvTRYLAE--TAATLDEMLLITFNRAASRELRERvrgqIVEAVGALQGDaPPSGEL--VEHLLRG 94
Cdd:PRK13909 3 LKASAGSGKTFALS---VRFLALlfKGANPSEILALTFTKKAANEMKER----IIDTLLNLEKE-KEESELneLEEKLGL 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 95 SDAERAQKRSRLrdaLANFDAAT--IATTHEFCGSVLKS----LGVAgdnaADVELKESLTDLVTEIV-------DDRYL 161
Cdd:PRK13909 75 SKEELLNKRDKV---YQEFLNSElkISTIDAFFQKILRKfclnLGLS----PDFSIKEDTKEELNEKFlsalskeELLEL 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 162 ANFGRQETDPELtYAEALALALAVVDDPCAQLRPPDPEP------------------------GSKAAVRLrFAAEVLEE 217
Cdd:PRK13909 148 LAFIKQCESKKN-NSFFELLEKLYEKNNELKLFEKAKNPiefdeekfleelrslkqqiqsietASKNAKKA-FKKEDFEE 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 218 LERRK--GRLRAQGFND------------------LLIRLATALEAA--------------------------------- 244
Cdd:PRK13909 226 LLNSSktWLEKESEYRYfkklyneeldaefeelknALKRYYDAKENYklsklfkllqlykeaknelnkkknaldfddisk 305
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 245 --------DSPARD----RMRERWRIVLVDEFQDTDPMQWRVLE---------RAFSRHSALILIGDPKQAIYGFRGGD- 302
Cdd:PRK13909 306 kvyellgeEEIDKDflyfRLDSKISHILIDEFQDTSVLQYKILLplideiksgEGQKKFRSFFYVGDVKQSIYRFRGGKk 385
|
410 420 430
....*....|....*....|....*....|....*
gi 490002425 303 -IHTYLKaagtadARYT-----LGVNWRSDRALVE 331
Cdd:PRK13909 386 eLFDKVS------KDFKqkvdnLDTNYRSAPLIVD 414
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
592-684 |
2.18e-07 |
|
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. This family also includes ATP-dependent helicase/nuclease AddA and helicase/nuclease RecBCD subunit RecB, among others. UvrD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350194 [Multi-domain] Cd Length: 150 Bit Score: 51.46 E-value: 2.18e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 592 HNRRLDSDAAAVQIMTVFVAKGLQFPIVYLPFAFNRNVRSDdiLLYHDDGTRclyiggkdggaqRRTVEglnrveaahDN 671
Cdd:cd18807 75 RQARVIEEALRVTLMTIHASKGLEFPVVFIVGLGEGFIPSD--ASYHAAKED------------EERLE---------EE 131
|
90
....*....|...
gi 490002425 672 LRLTYVALTRAQS 684
Cdd:cd18807 132 RRLLYVALTRAKK 144
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
230-300 |
3.27e-07 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 54.46 E-value: 3.27e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490002425 230 FNDLlIRLATALEAADSPARDRMRERWRIVLVDEFQDTDPMQWRVLERAFSRHSALILIGDPKQAIYGFRG 300
Cdd:PRK10919 183 FDDL-ILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDDDQSIYSWRG 252
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
230-308 |
4.62e-07 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 54.11 E-value: 4.62e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 230 FNDLLIRlatALEA-ADSPA-RDRMRERWRIVLVDEFQDTDPMQ--W-RVLERAfsrHSALILIGDPKQAIYGFRGG--- 301
Cdd:PRK11773 189 FAELLLR---AHELwLNKPHiLQHYQERFTHILVDEFQDTNAIQyaWiRLLAGD---TGKVMIVGDDDQSIYGWRGAqve 262
|
....*..
gi 490002425 302 DIHTYLK 308
Cdd:PRK11773 263 NIQRFLN 269
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
255-321 |
1.52e-05 |
|
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. 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. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438706 [Multi-domain] Cd Length: 121 Bit Score: 45.55 E-value: 1.52e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 490002425 255 RWRIVLVDEFQDTDPMQWRVLERAFSRHSALILIGDPKQAIYGFRGGDIHTYLKAAGTADARYTLGV 321
Cdd:cd17914 46 QLDNILVDEAAQILEPETSRLIDLALDQGRVILVGDHDQLGPVWRGAVLAKICNEQSLFTRLVRLGV 112
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
256-303 |
1.76e-05 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 48.79 E-value: 1.76e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 490002425 256 WRIVLVDEFQDTDPMQWRVLE--RAFSRHSALILIGDPKQAIYGFRGGDI 303
Cdd:PRK11054 431 WKHILVDEFQDISPQRAALLAalRKQNSQTTLFAVGDDWQAIYRFSGADL 480
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
259-299 |
5.98e-05 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 44.13 E-value: 5.98e-05
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 490002425 259 VLVDEFQDTD-PMQWRVLeRAFSRHSALILIGDPKQAIYGFR 299
Cdd:pfam13245 96 LIVDEFSMVDlPLAYRLL-KALPDGAQLLLVGDPDQLPSVGP 136
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
18-65 |
1.04e-03 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 40.28 E-value: 1.04e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 490002425 18 VLEASAGTGKTFALAGLVtRYLAETAATLDEMLLITFNRAASRELRER 65
Cdd:pfam13245 15 LLTGGPGTGKTTTIRHIV-ALLVALGGVSFPILLAAPTGRAAKRLSER 61
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
424-684 |
4.11e-03 |
|
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety of helicase enzymes. This domain has a AAA-like structural fold.
Pssm-ID: 433145 [Multi-domain] Cd Length: 377 Bit Score: 40.85 E-value: 4.11e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 424 DIAVIVEHHKDARACRNALAEAGIPAIYTGDTDVFASQAAKDWLCLLEAFDAPQRS--------GLVRAAACTMFfgETA 495
Cdd:pfam13361 77 DIAVLTRSNSDADLIEEALKKLGIPYFVVGQTKFFRREEIKDILAYLRLIANKHDSislkrilnGPKRGIGNATL--ERI 154
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 496 ESLAAEGDALTDRV-AGTLREWADHARH----RGVaaVF---------------QAAQLAGMGRRVLSQR---------- 545
Cdd:pfam13361 155 REYKKRGLRLSDFInPDTLTYGDPFVIAleqdNIV--VFdvettgldttedeiiQIAAIKLNKKGVVIESferflrlkkp 232
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 546 -------GGERDLTDLAH-------IAQLLHEAAH--------RERLGL---PGLRDWLR---RQAKAGAGPPEHNRRLD 597
Cdd:pfam13361 233 vgdslqvHGFSDEFLQENgetpaeaLRDFLEKLENlrelysilREYDDIeetPEPEDALRnflEIATLSNSELEGSDIKE 312
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490002425 598 SdaaaVQIMTVFVAKGLQFPIVYLPFAFNRNVRSddillyhddgtrclyiggkdggaqRRTVEGLNRVEAAHdnlRLTYV 677
Cdd:pfam13361 313 R----IPIMTIHQAKGLEFDTVFLAGLEEGIFPS------------------------YRSIKDEGNLEEER---RLFYV 361
|
....*..
gi 490002425 678 ALTRAQS 684
Cdd:pfam13361 362 AITRAKK 368
|
|
| |
