|
Name |
Accession |
Description |
Interval |
E-value |
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
2-805 |
1.10e-123 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 395.84 E-value: 1.10e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVAE-GTDPERILVLTFGRRTATTLRHRIEARIvaaaGRVVHEPLVRTFPAYAFGLLRRAAA 80
Cdd:COG0210 25 LAGAGSGKTRVLTHRIAYLIAEgGVDPEQILAVTFTNKAAREMRERIEALL----GRLARGLWVGTFHSLALRILRRHAE 100
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 81 ARG-EPSPRLLTGPEQDLIIRELLDVVGPDEDgddpygwppdlrpalrtRAFAAQLRDLLMRAAERGIGPAQLARLGEQL 159
Cdd:COG0210 101 LLGlPPNFTILDGDDQLRLIKELLKELGLDEK-----------------RFPPRELLSLISRAKNEGLTPEELAELLAAD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 160 DRadWPAAARFLREYVAVLALRDAttrgsvaYDPAELVRAATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLAR 239
Cdd:COG0210 164 PE--WRAAAELYEAYQERLRANNA-------LDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRL 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 240 IADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRtmsgaPAATVTLHTSYRAGSRLLAATNRLARRLRGPVGhRELR 319
Cdd:COG0210 235 LAGDGRNLCVVGDDDQSIYGFRGADPENILRFEKDFP-----DAKVIKLEQNYRSTQNILDAANAVIANNPGRLG-KNLW 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 320 plPDAPPGS-VRVRTFRSATSESTYVAHALREAHLvDGVPWSRMAVIVRSTArQLPSLQRALHAVAVPTVVHAEdLPLHL 398
Cdd:COG0210 309 --TDNGEGEkVRLYVAPDEEEEARFVADEIRELHE-EGVPLSDIAVLYRTNA-QSRALEEALRRAGIPYRVVGG-LRFYE 383
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 399 QPAVAPLLLLLRCALEPDrlDEEAAVALLHSPLGGADPLAERRLRQGLRAlalavgdRRPSgelLVEALRDPTELVAIER 478
Cdd:COG0210 384 RAEIKDLLAYLRLLANPD--DDVALLRILNVPRRGIGAATLERLREAARE-------EGIS---LLEALRDLGELAGLSG 451
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 479 RWAAPAQTVAALLGTARTAAARpgATAEDVLWAVWQATGLAERWHRITARGPAMDGEpdtvprmraaaadrdldAVVVLF 558
Cdd:COG0210 452 RAAKALRRFAELLEALRAAAER--LPLEELLEALLDESGYEEELREEAGEEAERRLE-----------------NLEELV 512
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 559 DTAARFVDRLPGARIEVFLDHVlgqQLPADTLAPsADRGEAVRLLTAHAAKGLEWDLVVVAGVQEGVWPDLRlrgSLLGS 638
Cdd:COG0210 513 DAAARFEERNPGASLEAFLEEL---ALLSDLDAA-DEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQR---SLDDE 585
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 639 ERlvdvlagraagagtaaavagqsaamLAEERRLFHVAVTRARHRLLVTAVASAGAGGGADYeEQPSRFLYELgvvdpPP 718
Cdd:COG0210 586 EE-------------------------LEEERRLFYVAITRARERLYLTYAASRRLWGETQD-NEPSRFLDEL-----PE 634
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 719 GGPAGDGATGGPDGDGPSGPDATVPGDGDSHGDPVELPVGRPPRALTLAALVAELRTAVTDPATPPDRRRAAAGELARLA 798
Cdd:COG0210 635 ELLEWVRPKAEAAAAAASAAAALPASGAGAAALAAGAAAAAAAAGGGAAVAGAGLGRAAAAGGADGGAAGAGGGLAAVAL 714
|
....*..
gi 2226886089 799 AAGVRGA 805
Cdd:COG0210 715 TVLPALL 721
|
|
| Slr0479 |
COG2887 |
RecB family exonuclease [Replication, recombination and repair]; |
829-1073 |
4.46e-44 |
|
RecB family exonuclease [Replication, recombination and repair];
Pssm-ID: 442133 [Multi-domain] Cd Length: 248 Bit Score: 160.20 E-value: 4.46e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 829 VKVTPSTMESALRCSLRWLLEKHGG----SAPAGVAQGVGNLVHAAAMLAEDATADR---AQLLEYVAARFDAIDLAARW 901
Cdd:COG2887 1 RRLSPSRIETLLRCPLRYYARYILGlrdpLEPPPDAADRGTLVHAVLERFYKLPADElpaEELLALLEEAWAELGFEDPW 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 902 MAGPELTRAEAMVDKLLRWL-AGNPRRLLAIEHEFAVRLDDPARpvdLTGRVDRLEVDADGRLVVIDLKTGKSTSvTGAE 980
Cdd:COG2887 81 AAALWLERAERLLEAFLEWErAPAGLEPVAVEVEFELELPGGVR---LRGRIDRIDRLPDGRLVVVDYKTGKAPS-TKDE 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 981 LAEHPQLGAYQAAVEAGgfaEFGDESGGAALVQLGTSTKDAReqgqeAVTEAEDAGWARAMVRRTAETMAAST--FSAVA 1058
Cdd:COG2887 157 AGEDPQLALYALALERG---FEGLVPAGARLVYLGDLGKKKV-----LDPLEEELEEAEERLEELAAAIADPEgpFPARP 228
|
250
....*....|....*.
gi 2226886089 1059 N-SKCRVCPVRTSCPV 1073
Cdd:COG2887 229 NpPLCRYCDYRHLCRV 244
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
2-275 |
4.15e-40 |
|
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: 149.32 E-value: 4.15e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVAE-GTDPERILVLTFGRRTATTLRHRIEARIvaaAGRVVHEPLVRTFPAYAFGLLRRAAA 80
Cdd:pfam00580 19 LAGAGSGKTRVLTERIAYLILEgGIDPEEILAVTFTNKAAREMKERILKLL---GKAELSELNISTFHSFCLRILRKYAN 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 81 ARGEPSP-RLLTGPEQDLIIRELLDvvgpdedgDDPYGWPPDLRPALRTRAFAAqlrdllmRAAERGIGPAQLARLGEql 159
Cdd:pfam00580 96 RIGLLPNfSILDELDQLALLKELLE--------KDRLNLDPKLLRKLELKELIS-------KAKNRLLSPEELQQGAA-- 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 160 dRADWPAAARFLREYVAVLALRDAttrgsvaYDPAELVRAATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLAR 239
Cdd:pfam00580 159 -DPRDKLAAEFYQEYQERLKENNA-------LDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKL 230
|
250 260 270
....*....|....*....|....*....|....*.
gi 2226886089 240 IADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRF 275
Cdd:pfam00580 231 LAGGHENLFLVGDPDQSIYGFRGADIENILKFEKDF 266
|
|
| PDDEXK_1 |
pfam12705 |
PD-(D/E)XK nuclease superfamily; Members of this family belong to the PD-(D/E)XK nuclease ... |
831-1072 |
7.12e-35 |
|
PD-(D/E)XK nuclease superfamily; Members of this family belong to the PD-(D/E)XK nuclease superfamily
Pssm-ID: 432731 [Multi-domain] Cd Length: 250 Bit Score: 133.81 E-value: 7.12e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 831 VTPSTMESALRCSLRWLLEKHGG--SAPAGVAQGVGNLVHAAA-MLAEDATADRAQLLEYVAARFDA----------IDL 897
Cdd:pfam12705 2 LSPSRLETYLTCPLRFFLRYLLGlrEDEELDAPDLGTLVHAALeRFYRWGRLPEEDLEELLQALLEElwpelglqseILP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 898 AARWMAGPELTRAEAMVDKLLRWLAGNP-RRLLAIEHEFAvrlddpARPVDLTGRVDRLEVDADGRLVVIDLKTGKSTSV 976
Cdd:pfam12705 82 RLPWLAGRLRRRLERMLRRLAEWLRARRgFRPVAVELGFG------GTTVRLVGRIDRVDLDGEGYLRIIDYKTGSAPPQ 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 977 TGA-ELAEHPQLGAYQAAVEAGGFAefGDESGGAALVQLG-TSTKDAREQGQEAVTEAEDAGWARAmVRRTAETMAASTF 1054
Cdd:pfam12705 156 SEDlDLYEGLQLLLYLLALAAGEKA--LGGPAGALYLRLDdPLKKDEEVVEPMVLTEDEFDALLQE-LRELAEEILAGEF 232
|
250
....*....|....*...
gi 2226886089 1055 SAVANSKCRVCPVRTSCP 1072
Cdd:pfam12705 233 PARPGKKCRYCPYRSICP 250
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
4-292 |
4.42e-25 |
|
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: 103.36 E-value: 4.42e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 4 GPGTGKTDTLVEAVAARVAEG-TDPERILVLTFGRRTATTLRHRIEARIvaaAGRVVHEPLVRTFPAYAFGLLRRaaaar 82
Cdd:cd17932 20 GAGSGKTRVLTHRIAYLILEGgVPPERILAVTFTNKAAKEMRERLRKLL---GEQLASGVWIGTFHSFALRILRR----- 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 83 gepsprlltgpeqdliirelldvvgpdeDGDdpygwppdlrpalrtraFAaqlrDLLMRAAErgigpaqlarlgeqldra 162
Cdd:cd17932 92 ----------------------------YGD-----------------FD----DLLLYALE------------------ 104
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 163 dwpaaarflreyvavlalrdattrgsvaydpaelvraatgLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLARIAD 242
Cdd:cd17932 105 ----------------------------------------LLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAG 144
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 2226886089 243 GGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRtmsgaPAATVTLHTSY 292
Cdd:cd17932 145 DGKNLFVVGDDDQSIYGFRGADPENILDFEKDFP-----DAKVIKLEENY 189
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
1-711 |
5.09e-13 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 73.34 E-value: 5.09e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 1 MLGGPGTGKTDTLVEAVAARVAE-GTDPERILVLTFGRRTATTLRHRIEARIVAAAGRVVhepLVRTFPAYAFGLLRRAA 79
Cdd:PRK10919 20 VLAGAGSGKTRVITNKIAHLIRGcGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGL---MISTFHTLGLDIIKREY 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 80 AARGEPSP-RLLTGPEQDLIIRELLDvvgpdedgddpyGWPPDLRPALRtrafaaQLRDLLMRAAERGIGPAQLArlgeq 158
Cdd:PRK10919 97 AALGMKSNfSLFDDTDQLALLKELTE------------GLIEDDKVLLQ------QLISTISNWKNDLKTPAQAA----- 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 159 ldradwpAAARFLRE--YVAVLALRDATTRGSVAYDPAELVRAATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDL 236
Cdd:PRK10919 154 -------AGAKGERDriFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYEL 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 237 LARIADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRTMsgapaATVTLHTSYRAGSRLLAATNRL--------ARR 308
Cdd:PRK10919 227 VKLLVGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPAL-----QVIKLEQNYRSSGRILKAANILiannphvfEKR 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 309 LRGPVGHRElrplpdappgSVRVRTFRSATSESTYVAHALREAHLVDGVPWSRMAVIVRSTaRQLPSLQRALHAVAVPTV 388
Cdd:PRK10919 302 LFSELGYGD----------ELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGN-HQSRVFEKFLMQNRIPYK 370
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 389 VHAEDlPLHLQPAVAPLLLLLRCALEPDrlDEEAAVALLHSPLGGADPLAERRL----RQGLRALALAVGDRRPSGELL- 463
Cdd:PRK10919 371 ISGGT-SFFSRPEIKDLLAYLRVLTNPD--DDSAFLRIVNTPKREIGPATLQKLgewaMTRNKSLFTASFDMGLSQTLSg 447
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 464 --VEALRDPTelvaierRWaapaqtvaaLLGTARTAAARPGATAEDVLWAVwqatgLAERWHRITARGPAMdgepdTVPR 541
Cdd:PRK10919 448 rgYESLTRFT-------HW---------LAEIQRLAEREPVAAVRDLIHGI-----DYESWLYETSPSPKA-----AEMR 501
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 542 MraaaadrdlDAVVVLFdtaARFVDRLPGARIEVFLdhVLGQQLPADTLAPSADRGEA------VRLLTAHAAKGLEWDL 615
Cdd:PRK10919 502 M---------KNVNQLF---SWMTEMLEGSELDEPM--TLTQVVTRFTLRDMMERGESeeeldqVQLMTLHASKGLEFPY 567
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 616 VVVAGVQEGVWPDlrlRGSLlgSERLVDvlagraagagtaaavagqsaamlaEERRLFHVAVTRARHRLLVTavasaGAG 695
Cdd:PRK10919 568 VYLVGMEEGLLPH---QSSI--DEDNID------------------------EERRLAYVGITRAQKELTFT-----LCK 613
|
730 740
....*....|....*....|
gi 2226886089 696 GGADYEE----QPSRFLYEL 711
Cdd:PRK10919 614 ERRQYGElvrpEPSRFLLEL 633
|
|
| addB_alphas |
TIGR02786 |
double-strand break repair protein AddB, alphaproteobacterial type; AddAB is a system well ... |
864-1006 |
1.61e-04 |
|
double-strand break repair protein AddB, alphaproteobacterial type; AddAB is a system well described in the Firmicutes as a replacement for RecBCD in many prokaryotes for the repair of double stranded break DNA damage. More recently, a distantly related gene pair conserved in many alphaproteobacteria was shown also to function in double-stranded break repair in Rhizobium etli. This family consists of AddB proteins of the alphaproteobacteial type. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274300 [Multi-domain] Cd Length: 1021 Bit Score: 45.89 E-value: 1.61e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 864 GNLVHAA-----AMLAEDATADRAQLLEYVAARFDA-----IDLAARWMAgpeltRAEAMVDKLLRWLAGnpRRLLAIEH 933
Cdd:TIGR02786 788 GTLIHDIlerfvREYPDPLPADAADALRKIGRAEFAslnlpPTAEALWWP-----RFARAADWFADWERA--RRLDVRRI 860
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2226886089 934 EFAVRLD---DPARPVDLTGRVDRLEVDADGRLVVIDLKTGKSTSVTGAELAEHPQLGAYQAAVEAGGFAEFGDES 1006
Cdd:TIGR02786 861 FAEARGRkelVGERGFTLSGRADRIDRTPDGSAAILDYKTGAPPSGKQVRAGLSPQLALEAALLMRGAFKDIGAPT 936
|
|
| NucS-like |
cd22341 |
Mismatch restriction endonuclease NucS and similar nucleases; Archaeal mismatch restriction ... |
886-974 |
6.43e-03 |
|
Mismatch restriction endonuclease NucS and similar nucleases; Archaeal mismatch restriction endonuclease NucS and its ortholog EndoMS specifically cleave dsDNA containing mismatched bases. They belong to a superfamily of PDDEXK 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: 411745 [Multi-domain] Cd Length: 237 Bit Score: 39.69 E-value: 6.43e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 886 EYVAARFDAIDLAARWMAGPEltraEAMVDkllrWLAGNPRR----LLAIEHEFAVrlddPARPVDLTGRvdrlevDADG 961
Cdd:cd22341 108 VELLTAEDLEDEEELELGGLE----KDLED----YLARNPELieegLRIIGREYPT----PVGRIDILAK------DKDG 169
|
90
....*....|...
gi 2226886089 962 RLVVIDLKTGKST 974
Cdd:cd22341 170 NLVVIELKRGRAD 182
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
2-805 |
1.10e-123 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 395.84 E-value: 1.10e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVAE-GTDPERILVLTFGRRTATTLRHRIEARIvaaaGRVVHEPLVRTFPAYAFGLLRRAAA 80
Cdd:COG0210 25 LAGAGSGKTRVLTHRIAYLIAEgGVDPEQILAVTFTNKAAREMRERIEALL----GRLARGLWVGTFHSLALRILRRHAE 100
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 81 ARG-EPSPRLLTGPEQDLIIRELLDVVGPDEDgddpygwppdlrpalrtRAFAAQLRDLLMRAAERGIGPAQLARLGEQL 159
Cdd:COG0210 101 LLGlPPNFTILDGDDQLRLIKELLKELGLDEK-----------------RFPPRELLSLISRAKNEGLTPEELAELLAAD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 160 DRadWPAAARFLREYVAVLALRDAttrgsvaYDPAELVRAATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLAR 239
Cdd:COG0210 164 PE--WRAAAELYEAYQERLRANNA-------LDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRL 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 240 IADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRtmsgaPAATVTLHTSYRAGSRLLAATNRLARRLRGPVGhRELR 319
Cdd:COG0210 235 LAGDGRNLCVVGDDDQSIYGFRGADPENILRFEKDFP-----DAKVIKLEQNYRSTQNILDAANAVIANNPGRLG-KNLW 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 320 plPDAPPGS-VRVRTFRSATSESTYVAHALREAHLvDGVPWSRMAVIVRSTArQLPSLQRALHAVAVPTVVHAEdLPLHL 398
Cdd:COG0210 309 --TDNGEGEkVRLYVAPDEEEEARFVADEIRELHE-EGVPLSDIAVLYRTNA-QSRALEEALRRAGIPYRVVGG-LRFYE 383
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 399 QPAVAPLLLLLRCALEPDrlDEEAAVALLHSPLGGADPLAERRLRQGLRAlalavgdRRPSgelLVEALRDPTELVAIER 478
Cdd:COG0210 384 RAEIKDLLAYLRLLANPD--DDVALLRILNVPRRGIGAATLERLREAARE-------EGIS---LLEALRDLGELAGLSG 451
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 479 RWAAPAQTVAALLGTARTAAARpgATAEDVLWAVWQATGLAERWHRITARGPAMDGEpdtvprmraaaadrdldAVVVLF 558
Cdd:COG0210 452 RAAKALRRFAELLEALRAAAER--LPLEELLEALLDESGYEEELREEAGEEAERRLE-----------------NLEELV 512
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 559 DTAARFVDRLPGARIEVFLDHVlgqQLPADTLAPsADRGEAVRLLTAHAAKGLEWDLVVVAGVQEGVWPDLRlrgSLLGS 638
Cdd:COG0210 513 DAAARFEERNPGASLEAFLEEL---ALLSDLDAA-DEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQR---SLDDE 585
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 639 ERlvdvlagraagagtaaavagqsaamLAEERRLFHVAVTRARHRLLVTAVASAGAGGGADYeEQPSRFLYELgvvdpPP 718
Cdd:COG0210 586 EE-------------------------LEEERRLFYVAITRARERLYLTYAASRRLWGETQD-NEPSRFLDEL-----PE 634
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 719 GGPAGDGATGGPDGDGPSGPDATVPGDGDSHGDPVELPVGRPPRALTLAALVAELRTAVTDPATPPDRRRAAAGELARLA 798
Cdd:COG0210 635 ELLEWVRPKAEAAAAAASAAAALPASGAGAAALAAGAAAAAAAAGGGAAVAGAGLGRAAAAGGADGGAAGAGGGLAAVAL 714
|
....*..
gi 2226886089 799 AAGVRGA 805
Cdd:COG0210 715 TVLPALL 721
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
6-687 |
2.45e-48 |
|
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: 186.32 E-value: 2.45e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 6 GTGKTDTLVEAVAARVAE-GTDPERILVLTFGRRTATTLRHRIEARIVAAAG-----------------RVVHEP---LV 64
Cdd:COG1074 28 GSGKTYTLVARYLRLLLErGLDPEEILVVTFTRAAAAEMRERIRERLAEAADledpdleelararrrlaRALENLdraAI 107
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 65 RTFPAYAFGLLRRAA-AARGEPSPRLLTGPEQDLI---IRELLDVVGPDED-----------GDDPYGWPPDLRPALRTR 129
Cdd:COG1074 108 STIHSFCQRLLREFAfEAGLDPNFELLDDAEALLLeeaVDDLLREAYAPLDalalarlldafGRDDDSLEELLLALYKLR 187
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 130 A-------------FAAQLRDLLMRAAERgigpaqLARLGEQLDRADWP---AAARFLREYVAVLALRdATTRGSVAYDp 193
Cdd:COG1074 188 SrpdwleelaeldeALEALREALLKAKEA------LAALREALAAAAAPllaALLRLLAAVLARYERR-KRERGLLDFD- 259
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 194 aELVRAATGLLADD--PELLAAERHRLAHVYVDELADTDPAQVDLLARIADG----GRSLVAFADPDSSTYSFRGADPTI 267
Cdd:COG1074 260 -DLLHRALRLLRDEdaPWVAERLRERYRHILVDEFQDTSPLQWEILRRLAGEaladGRTLFLVGDPKQSIYRFRGADPEL 338
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 268 VSTFPQRFRtmSGAPAATVTLHTSYRAGSRLLAATNRLARRLR----GPVGHRELRPLPDAPPGSVRVRTFRSATSES-- 341
Cdd:COG1074 339 FLEARRALE--GRVDGERLTLTTNFRSTPEVVDAVNALFAQLMgagfGEIPYEPVEALRPGAYPAVELWPLEPDDVSEed 416
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 342 ----------TYVAHALREAHLVDG----VPWSRMAVIVRSTaRQLPSLQRALHAVAVPtVVHAEDLPLHLQPAVAPLLL 407
Cdd:COG1074 417 arerearavaARIRRLLAEGTTVEGggrpVRPGDIAVLVRTR-SEAAAIARALKAAGIP-VAASDRLSLFESPEVRDLLA 494
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 408 LLRCALEPDrlDEEAAVALLHSPLGGADplaerrlrqgLRALALAVGDRRpsGELLVEALRDptelvaiERRWAAPAQTV 487
Cdd:COG1074 495 LLRALLNPE--DDLALAAVLRSPLFGLS----------DEDLAALAADRK--GESLWEALRA-------YERLARALERL 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 488 AALLGTARTAaarpgaTAEDVLWAVWQATGLAERWHRITargpamDGEpdtvprmraaAADRDLDAVVVLFDTAARFvDR 567
Cdd:COG1074 554 RALRELARRL------GLAELLERLLEETGLLERLLALP------GGE----------RRLANLLHLDELLQLALEY-EQ 610
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 568 LPGARIEVFLDHV--LGQQLPADTLAPSADRGEAVRLLTAHAAKGLEWDLVVVAGVQEgvwpdlrlrgsllgserlvdvl 645
Cdd:COG1074 611 TGGPGLAGFLRWLerLIEDGGDEEKRRLESDADAVRIMTIHKSKGLEFPVVFLPALRE---------------------- 668
|
730 740 750 760
....*....|....*....|....*....|....*....|..
gi 2226886089 646 agraagagtaaavaGQSAAMLAEERRLFHVAVTRARHRLLVT 687
Cdd:COG1074 669 --------------RARAEELAEELRLLYVALTRARDRLVLS 696
|
|
| Slr0479 |
COG2887 |
RecB family exonuclease [Replication, recombination and repair]; |
829-1073 |
4.46e-44 |
|
RecB family exonuclease [Replication, recombination and repair];
Pssm-ID: 442133 [Multi-domain] Cd Length: 248 Bit Score: 160.20 E-value: 4.46e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 829 VKVTPSTMESALRCSLRWLLEKHGG----SAPAGVAQGVGNLVHAAAMLAEDATADR---AQLLEYVAARFDAIDLAARW 901
Cdd:COG2887 1 RRLSPSRIETLLRCPLRYYARYILGlrdpLEPPPDAADRGTLVHAVLERFYKLPADElpaEELLALLEEAWAELGFEDPW 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 902 MAGPELTRAEAMVDKLLRWL-AGNPRRLLAIEHEFAVRLDDPARpvdLTGRVDRLEVDADGRLVVIDLKTGKSTSvTGAE 980
Cdd:COG2887 81 AAALWLERAERLLEAFLEWErAPAGLEPVAVEVEFELELPGGVR---LRGRIDRIDRLPDGRLVVVDYKTGKAPS-TKDE 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 981 LAEHPQLGAYQAAVEAGgfaEFGDESGGAALVQLGTSTKDAReqgqeAVTEAEDAGWARAMVRRTAETMAAST--FSAVA 1058
Cdd:COG2887 157 AGEDPQLALYALALERG---FEGLVPAGARLVYLGDLGKKKV-----LDPLEEELEEAEERLEELAAAIADPEgpFPARP 228
|
250
....*....|....*.
gi 2226886089 1059 N-SKCRVCPVRTSCPV 1073
Cdd:COG2887 229 NpPLCRYCDYRHLCRV 244
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
2-275 |
4.15e-40 |
|
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: 149.32 E-value: 4.15e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVAE-GTDPERILVLTFGRRTATTLRHRIEARIvaaAGRVVHEPLVRTFPAYAFGLLRRAAA 80
Cdd:pfam00580 19 LAGAGSGKTRVLTERIAYLILEgGIDPEEILAVTFTNKAAREMKERILKLL---GKAELSELNISTFHSFCLRILRKYAN 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 81 ARGEPSP-RLLTGPEQDLIIRELLDvvgpdedgDDPYGWPPDLRPALRTRAFAAqlrdllmRAAERGIGPAQLARLGEql 159
Cdd:pfam00580 96 RIGLLPNfSILDELDQLALLKELLE--------KDRLNLDPKLLRKLELKELIS-------KAKNRLLSPEELQQGAA-- 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 160 dRADWPAAARFLREYVAVLALRDAttrgsvaYDPAELVRAATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLAR 239
Cdd:pfam00580 159 -DPRDKLAAEFYQEYQERLKENNA-------LDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKL 230
|
250 260 270
....*....|....*....|....*....|....*.
gi 2226886089 240 IADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRF 275
Cdd:pfam00580 231 LAGGHENLFLVGDPDQSIYGFRGADIENILKFEKDF 266
|
|
| PDDEXK_1 |
pfam12705 |
PD-(D/E)XK nuclease superfamily; Members of this family belong to the PD-(D/E)XK nuclease ... |
831-1072 |
7.12e-35 |
|
PD-(D/E)XK nuclease superfamily; Members of this family belong to the PD-(D/E)XK nuclease superfamily
Pssm-ID: 432731 [Multi-domain] Cd Length: 250 Bit Score: 133.81 E-value: 7.12e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 831 VTPSTMESALRCSLRWLLEKHGG--SAPAGVAQGVGNLVHAAA-MLAEDATADRAQLLEYVAARFDA----------IDL 897
Cdd:pfam12705 2 LSPSRLETYLTCPLRFFLRYLLGlrEDEELDAPDLGTLVHAALeRFYRWGRLPEEDLEELLQALLEElwpelglqseILP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 898 AARWMAGPELTRAEAMVDKLLRWLAGNP-RRLLAIEHEFAvrlddpARPVDLTGRVDRLEVDADGRLVVIDLKTGKSTSV 976
Cdd:pfam12705 82 RLPWLAGRLRRRLERMLRRLAEWLRARRgFRPVAVELGFG------GTTVRLVGRIDRVDLDGEGYLRIIDYKTGSAPPQ 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 977 TGA-ELAEHPQLGAYQAAVEAGGFAefGDESGGAALVQLG-TSTKDAREQGQEAVTEAEDAGWARAmVRRTAETMAASTF 1054
Cdd:pfam12705 156 SEDlDLYEGLQLLLYLLALAAGEKA--LGGPAGALYLRLDdPLKKDEEVVEPMVLTEDEFDALLQE-LRELAEEILAGEF 232
|
250
....*....|....*...
gi 2226886089 1055 SAVANSKCRVCPVRTSCP 1072
Cdd:pfam12705 233 PARPGKKCRYCPYRSICP 250
|
|
| AddB |
COG3857 |
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair]; |
1-996 |
1.10e-26 |
|
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];
Pssm-ID: 443066 [Multi-domain] Cd Length: 1019 Bit Score: 117.92 E-value: 1.10e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 1 MLGGPGTGKTDTLVEAVAARVAEGtdpERILVLTFGRRTATTLRHRIEARIVAAAGRVvhepLVRTFPAYAFGLLRRAaa 80
Cdd:COG3857 3 ILGRAGSGKTTYLLEEIKEELKEG---KPIILLVPEQMTFQAERALLKRLGLGGSIRA----QVLSFSRLAWRVLQET-- 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 81 arGEPSPRLLTGPEQDLIIRELLDVVGPDedgddpygwPPDLRPALRTRAFAAQLRDLLMRAAERGIGPAQLARLGEQL- 159
Cdd:COG3857 74 --GGATRPLLSDAGKRMLLRKILEEHKDE---------LKVFARAADKPGFIEQLAELITELKRYGITPEDLEEAAELLk 142
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 160 DRADwpAAARFLREYVAVLALRDattrgsvaYDPAELVRAATGLLADDPELlaaerhRLAHVYVDELADTDPAQVDLLAR 239
Cdd:COG3857 143 EKLR--DLALIYEAYEEKLAGRY--------IDSEDLLRLLAEKLEKSEFL------EGAEIYIDGFTDFTPQELELLEA 206
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 240 IADGGRSL-VAFADPDSSTYSFRGADPTIvstfpQRFRTMSGAPAATVTLHTSyragsrllAATNRLARRLrgpvghreL 318
Cdd:COG3857 207 LLKKAKEVtITLTLDPDELDLFSATGETY-----ERLLELAKENGVEVEFKKS--------PELAHLERNL--------F 265
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 319 RPLPDAPPGSVRVRTFRSATSESTYVAHALREAHLVDGVPWSRMAVIVRSTARQLPSLQRALHAVAVPTVVhAEDLPLHL 398
Cdd:COG3857 266 AYPPEEEPEGIEIIEAANRRAEVEAVAREIRRLVREEGYRYRDIAVVVRDLEAYAPLIERVFAEYGIPYFI-DEKRPLSH 344
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 399 QPAVAPLLLLLRCALEPDRLdeEAAVALLHSPLggADPLAERRLRQgLRALALAVG------DRRPSGELLVEALRDPTE 472
Cdd:COG3857 345 HPLVELILSLLELVRSNFRY--EDVFRLLKTGL--LRPLSREEIDR-LENYVLAYGirgrrwLERYLEEEEELTDEEEED 419
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 473 LVAIERRWAAPAQTVAALLGTARtaAARPGATAEDVLWAVWQATGLAER---WHRITARGPAMDGEpdtvprmraaAADR 549
Cdd:COG3857 420 LERLNELRDRLLEPLLPLRERLK--KAKTVREWAEALYEFLEELGVPEKleeWREAEEAGDLEEAR----------EHEQ 487
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 550 DLDAVVVLFDtaaRFVDRLPGARI--EVFLDhVLGQQLPADTLAPSADRGEAVRLLTAHAAKGLEWDLVVVAGVQEGVWP 627
Cdd:COG3857 488 AWNALIELLD---ELVEVLGDEKLslEEFLR-ILESGLEELTFGLIPPSLDQVQVGGLDRARGLDFKAVFVLGLNEGVFP 563
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 628 DLRLRGSLLgSERLVDVLAGRAAGAGTAAAVAgqsaamLAEERRLFHVAVTRARHRLLVTavasagaGGGADYEEQ---P 704
Cdd:COG3857 564 ARPREDGLL-SDEERERLNELGLELPPTSRER------LLEERFLFYRALTRASERLYLS-------YPLADEEGKallP 629
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 705 SRFLYELGVVDpppggpagdgatggpdgdgpsgpdatvpGDGDSHGDPVELPVGRPPRALTLAALVAELRTAVTDPatpp 784
Cdd:COG3857 630 SPLIDRLRELF----------------------------PELEERSLLEEELEYIGTPESALSELAAALRQLELAP---- 677
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 785 drrraaagelarlaaagvrgahpdDWWGL-RALsddrplvdegepVKVTPSTMESALRCSLRWLL---------EKHGGS 854
Cdd:COG3857 678 ------------------------LWWDVyKWL------------LKLSVSRLETYAACPFQFFLryglklkerEEYELD 721
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 855 APAgvaqgVGNLVHAA-----AMLAED----ATADRAQLLEYVAARFDAI---------DLAARWMAgpELTRAEAMVDK 916
Cdd:COG3857 722 APD-----RGTLFHAVlerfyKELKEEgldwADLSDEELEELLEEAVEELapelqngilLSSARYRY--LLERLKRLLKR 794
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 917 LLRWLAGNPRRL----LAIEHEFAVRLDDPA--------RPVDLTGRVDRL-EVDADGR-LVVIDLKTGkSTSVTGAELA 982
Cdd:COG3857 795 ARRWLEEEARRSgfepVALELSFGPEGGLPPlelelpngRKIRLRGRIDRIdRLESDGRyLRIIDYKSG-SKKFDLDDVY 873
|
1050
....*....|....*.
gi 2226886089 983 E--HPQLGAYQAAVEA 996
Cdd:COG3857 874 YglALQLPLYLDAALE 889
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
4-292 |
4.42e-25 |
|
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: 103.36 E-value: 4.42e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 4 GPGTGKTDTLVEAVAARVAEG-TDPERILVLTFGRRTATTLRHRIEARIvaaAGRVVHEPLVRTFPAYAFGLLRRaaaar 82
Cdd:cd17932 20 GAGSGKTRVLTHRIAYLILEGgVPPERILAVTFTNKAAKEMRERLRKLL---GEQLASGVWIGTFHSFALRILRR----- 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 83 gepsprlltgpeqdliirelldvvgpdeDGDdpygwppdlrpalrtraFAaqlrDLLMRAAErgigpaqlarlgeqldra 162
Cdd:cd17932 92 ----------------------------YGD-----------------FD----DLLLYALE------------------ 104
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 163 dwpaaarflreyvavlalrdattrgsvaydpaelvraatgLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLARIAD 242
Cdd:cd17932 105 ----------------------------------------LLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAG 144
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 2226886089 243 GGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRtmsgaPAATVTLHTSY 292
Cdd:cd17932 145 DGKNLFVVGDDDQSIYGFRGADPENILDFEKDFP-----DAKVIKLEENY 189
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
600-684 |
1.31e-15 |
|
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: 74.96 E-value: 1.31e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 600 VRLLTAHAAKGLEWDLVVVAGVQEGVWPDLRLRGSLLGSErlvdvlagraagagtaaavagqsaAMLAEERRLFHVAVTR 679
Cdd:cd18807 86 VTLMTIHASKGLEFPVVFIVGLGEGFIPSDASYHAAKEDE------------------------ERLEEERRLLYVALTR 141
|
....*
gi 2226886089 680 ARHRL 684
Cdd:cd18807 142 AKKEL 146
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
1-711 |
5.09e-13 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 73.34 E-value: 5.09e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 1 MLGGPGTGKTDTLVEAVAARVAE-GTDPERILVLTFGRRTATTLRHRIEARIVAAAGRVVhepLVRTFPAYAFGLLRRAA 79
Cdd:PRK10919 20 VLAGAGSGKTRVITNKIAHLIRGcGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGL---MISTFHTLGLDIIKREY 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 80 AARGEPSP-RLLTGPEQDLIIRELLDvvgpdedgddpyGWPPDLRPALRtrafaaQLRDLLMRAAERGIGPAQLArlgeq 158
Cdd:PRK10919 97 AALGMKSNfSLFDDTDQLALLKELTE------------GLIEDDKVLLQ------QLISTISNWKNDLKTPAQAA----- 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 159 ldradwpAAARFLRE--YVAVLALRDATTRGSVAYDPAELVRAATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDL 236
Cdd:PRK10919 154 -------AGAKGERDriFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYEL 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 237 LARIADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRTMsgapaATVTLHTSYRAGSRLLAATNRL--------ARR 308
Cdd:PRK10919 227 VKLLVGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPAL-----QVIKLEQNYRSSGRILKAANILiannphvfEKR 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 309 LRGPVGHRElrplpdappgSVRVRTFRSATSESTYVAHALREAHLVDGVPWSRMAVIVRSTaRQLPSLQRALHAVAVPTV 388
Cdd:PRK10919 302 LFSELGYGD----------ELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGN-HQSRVFEKFLMQNRIPYK 370
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 389 VHAEDlPLHLQPAVAPLLLLLRCALEPDrlDEEAAVALLHSPLGGADPLAERRL----RQGLRALALAVGDRRPSGELL- 463
Cdd:PRK10919 371 ISGGT-SFFSRPEIKDLLAYLRVLTNPD--DDSAFLRIVNTPKREIGPATLQKLgewaMTRNKSLFTASFDMGLSQTLSg 447
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 464 --VEALRDPTelvaierRWaapaqtvaaLLGTARTAAARPGATAEDVLWAVwqatgLAERWHRITARGPAMdgepdTVPR 541
Cdd:PRK10919 448 rgYESLTRFT-------HW---------LAEIQRLAEREPVAAVRDLIHGI-----DYESWLYETSPSPKA-----AEMR 501
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 542 MraaaadrdlDAVVVLFdtaARFVDRLPGARIEVFLdhVLGQQLPADTLAPSADRGEA------VRLLTAHAAKGLEWDL 615
Cdd:PRK10919 502 M---------KNVNQLF---SWMTEMLEGSELDEPM--TLTQVVTRFTLRDMMERGESeeeldqVQLMTLHASKGLEFPY 567
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 616 VVVAGVQEGVWPDlrlRGSLlgSERLVDvlagraagagtaaavagqsaamlaEERRLFHVAVTRARHRLLVTavasaGAG 695
Cdd:PRK10919 568 VYLVGMEEGLLPH---QSSI--DEDNID------------------------EERRLAYVGITRAQKELTFT-----LCK 613
|
730 740
....*....|....*....|
gi 2226886089 696 GGADYEE----QPSRFLYEL 711
Cdd:PRK10919 614 ERRQYGElvrpEPSRFLLEL 633
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
286-687 |
1.86e-12 |
|
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: 70.13 E-value: 1.86e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 286 VTLHTSYRAGSRLLAATNRLARRLRgpvgHRELRPLPDAPPGS------VRVRTFRSATSESTYVAHALREaHLVDGVPW 359
Cdd:pfam13361 1 IHLEINYRSTKNLLKAANEFINNNF----GRATIYPKKILAETvedgekIKIIEAETEEEEAEWIALEIKK-LVARDEKY 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 360 SRMAVIVRSTaRQLPSLQRALHAVAVPTVV--------HAE--DLPLHLqpavaplllllRCALEPDrlDEEAAVALLHS 429
Cdd:pfam13361 76 NDIAVLTRSN-SDADLIEEALKKLGIPYFVvgqtkffrREEikDILAYL-----------RLIANKH--DSISLKRILNG 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 430 PLGGADPLAERRLRQ----GLRALALAVGDRRPSGELLVEALRDPTELV-AIERR----WAAPAQTVAALLGTARtaaar 500
Cdd:pfam13361 142 PKRGIGNATLERIREykkrGLRLSDFINPDTLTYGDPFVIALEQDNIVVfDVETTgldtTEDEIIQIAAIKLNKK----- 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 501 pGATAE--DVLWAVWQATGLAERWHRITARGPAMDGEPdtvPRMRAAAADRDLDAVVVLFDTAARFVDRLPGARIEVFLD 578
Cdd:pfam13361 217 -GVVIEsfERFLRLKKPVGDSLQVHGFSDEFLQENGET---PAEALRDFLEKLENLRELYSILREYDDIEETPEPEDALR 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 579 HVLGQQlpadTLAPSADRG----EAVRLLTAHAAKGLEWDLVVVAGVQEGVWPdlrlrgsllgSERLVDVLAGraagagt 654
Cdd:pfam13361 293 NFLEIA----TLSNSELEGsdikERIPIMTIHQAKGLEFDTVFLAGLEEGIFP----------SYRSIKDEGN------- 351
|
410 420 430
....*....|....*....|....*....|...
gi 2226886089 655 aaavagqsaamLAEERRLFHVAVTRARHRLLVT 687
Cdd:pfam13361 352 -----------LEEERRLFYVAITRAKKRLYIS 373
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
2-305 |
4.09e-09 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 60.66 E-value: 4.09e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVA-EGTDPERILVLTFGRRTATTLRHRIEARIVAAAGRVvhepLVRTFPAYAFGLLRRAAA 80
Cdd:PRK11773 28 LAGAGSGKTRVLVHRIAWLMQvENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQGGM----WVGTFHGLAHRLLRAHWQ 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 81 ARGEP-SPRLLTGPEQDLIIRELLDVVGPDEDGddpygWPPdlRPAlrtRAFAAQLRDLLMRAaergigpaqlarlgEQL 159
Cdd:PRK11773 104 DANLPqDFQILDSDDQLRLLKRLIKALNLDEKQ-----WPP--RQA---QWYINGQKDEGLRP--------------QHI 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 160 DRADWPAAARFLREYvavLALRDATTRGSVAyDPAELVRAATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLAR 239
Cdd:PRK11773 160 QSYGDPVEQTWLKIY---QAYQEACDRAGLV-DFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRL 235
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2226886089 240 IADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFrtmsgAPAATVTLHTSYRAGSRLLAATNRL 305
Cdd:PRK11773 236 LAGDTGKVMIVGDDDQSIYGWRGAQVENIQRFLNDF-----PGAETIRLEQNYRSTANILKAANAL 296
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
594-711 |
4.46e-09 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 60.66 E-value: 4.46e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 594 ADRGE-AVRLLTAHAAKGLEWDLVVVAGVQEGVWPDLRlrgSLLGSERlvdvlagraagagtaaavagqsaamLAEERRL 672
Cdd:PRK11773 547 ADAHEdAVQLMTLHSAKGLEFPLVFIVGMEEGLFPSQM---SLEEGGR-------------------------LEEERRL 598
|
90 100 110
....*....|....*....|....*....|....*....
gi 2226886089 673 FHVAVTRARHRLLVTAVASAGAGGGADYeEQPSRFLYEL 711
Cdd:PRK11773 599 AYVGITRAMQKLTLTYAESRRLYGKEVY-HRPSRFIREI 636
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
2-304 |
1.70e-07 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 55.34 E-value: 1.70e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVAEG-TDPERILVLTFGRRTATTLRHRIEARIVAAAGRVvheplvRTFPAYAFGLLRRAAA 80
Cdd:PRK11054 215 LAGAGSGKTSVLVARAGWLLARGqAQPEQILLLAFGRQAAEEMDERIRERLGTEDITA------RTFHALALHIIQQGSK 288
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 81 ARGEPSPRLL-TGPEQDLIIRELLDVVG------------PDE--DGDDPYG--WPpDLRPALRtraFAAQLRDL--LMR 141
Cdd:PRK11054 289 KVPVISKLENdSKARHALLIAEWRKQCSekkaqakgwrqwLTEelQWDVPEGnfWD-DEKLQRR---LASRLERWvsLMR 364
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 142 AAergiGPAQlARLGEQldrADWPAAARFLRE--YVAVL------ALRDATtrgsvAYDPAELVRAATGLLaddpellaa 213
Cdd:PRK11054 365 MH----GGSQ-AEMIAQ---APEEVRDLFQKRlkLMAPLlkawkkALKAEN-----AVDFSGLIHQAVNYL--------- 422
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 214 ERHRLA----HVYVDELADTDPAQVDLLA--RIADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRtmSGAPAAtvt 287
Cdd:PRK11054 423 EKGRFIspwkHILVDEFQDISPQRAALLAalRKQNSQTTLFAVGDDWQAIYRFSGADLSLTTAFHERFG--EGDRCH--- 497
|
330
....*....|....*..
gi 2226886089 288 LHTSYRAGSRLLAATNR 304
Cdd:PRK11054 498 LDTTYRFNSRIGEVANR 514
|
|
| PksD |
COG3321 |
Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites ... |
468-1051 |
2.94e-07 |
|
Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites biosynthesis, transport and catabolism];
Pssm-ID: 442550 [Multi-domain] Cd Length: 1386 Bit Score: 54.88 E-value: 2.94e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 468 RDPTELVAIERRWAAPAQTVAALLGTARTAAArpgataeDVLWAVWQAtglAERWHRITARGPAMDGEPDTVPRMRAAAA 547
Cdd:COG3321 814 AGDAVVLPSLRRGEDELAQLLTALAQLWVAGV-------PVDWSALYP---GRGRRRVPLPTYPFQREDAAAALLAAALA 883
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 548 DRDLDAVVVLFDTAARFVDRLPGARIEVFLDHVLGQQLPADTLAPSADrgeAVRLLTAHAAKGLEWDLVVVAGVQEGVWP 627
Cdd:COG3321 884 AALAAAAALGALLLAALAAALAAALLALAAAAAAALALAAAALAALLA---LVALAAAAAALLALAAAAAAAAAALAAAE 960
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 628 DLRLRGSLLGSERLVDVLAGRAAGAGTAAAVAGQSAAMLAEERRLFHVAVTRARHRLLVTAVASAGAGGGADYEEQPSRF 707
Cdd:COG3321 961 AGALLLLAAAAAAAAAAAAAAAAAAAAAAAAAAAALAAAAALALLAAAALLLAAAAAAAALLALAALLAAAAAALAAAAA 1040
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 708 LYELGVVDPPPGGPAGDGATGGPDGDGPSGPDATVPGDGDSHGDPVELPVGRPPRALTLAALVAELRTAVTDPATPPDRR 787
Cdd:COG3321 1041 AAAAAAALAALAAAAAAAAALALALAALLLLAALAELALAAAALALAAALAAAALALALAALAAALLLLALLAALALAAA 1120
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 788 RAAAGELARLAAAGVRGAHPDDWWGLRALSDDRPLVDEGEPVKVTPSTMESALRCSLRWLLEKHGGSAPAGVAQGVGNLV 867
Cdd:COG3321 1121 AAALLALAALLAAAAAAAALAAAAAAAAALALAAAAAALAAALAAALLAAAALLLALALALAAALAAALAGLAALLLAAL 1200
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 868 HAAAMLAEDATADRAQLLEYVAARFDAIDLAARWMAGPELTRAEAMVDKLLRWLAGNPRRLLAIEHEFAVRLDDPARPVD 947
Cdd:COG3321 1201 LAALLAALLALALAALAAAAAALLAAAAAAAALALLALAAAAAAVAALAAAAAALLAALAALALLAAAAGLAALAAAAAA 1280
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 948 LTGRVDRLEVDADGRLVVIDLKTGKSTSVTGAELAEHPQLGAYQAAVEAGGFAEFGDESGGAALVQLGTSTKDAREQGQE 1027
Cdd:COG3321 1281 AAAALALAAAAAAAAAALAALLAAAAAAAAAAAAAAAAAALAAALLAAALAALAAAVAAALALAAAAAAAAAAAAAAAAA 1360
|
570 580
....*....|....*....|....
gi 2226886089 1028 AVTEAEDAGWARAMVRRTAETMAA 1051
Cdd:COG3321 1361 AALAAAAGAAAAAAALALAALAAA 1384
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
600-711 |
4.35e-06 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 50.72 E-value: 4.35e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 600 VRLLTAHAAKGLEWDLVVVAGVQEGV--WP----DLRLRGSLLGS-ERLVDvlagraagagtaaavagqsaamlAEERRL 672
Cdd:PRK11054 589 IDFMTIHASKGQQADYVIILGLQEGQdgFPaparESIMEEALLPPpEDFPD-----------------------AEERRL 645
|
90 100 110
....*....|....*....|....*....|....*....
gi 2226886089 673 FHVAVTRARHRLLVTAVAsagagggadyeEQPSRFLYEL 711
Cdd:PRK11054 646 LYVALTRAKHRVWLLFNK-----------GNPSPFVEEL 673
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
2-51 |
6.95e-06 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 46.83 E-value: 6.95e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVAEGTDPERILVLTFGRRTATTLRHRIEARI 51
Cdd:pfam13245 17 TGGPGTGKTTTIRHIVALLVALGGVSFPILLAAPTGRAAKRLSERTGLPA 66
|
|
| addB_alphas |
TIGR02786 |
double-strand break repair protein AddB, alphaproteobacterial type; AddAB is a system well ... |
864-1006 |
1.61e-04 |
|
double-strand break repair protein AddB, alphaproteobacterial type; AddAB is a system well described in the Firmicutes as a replacement for RecBCD in many prokaryotes for the repair of double stranded break DNA damage. More recently, a distantly related gene pair conserved in many alphaproteobacteria was shown also to function in double-stranded break repair in Rhizobium etli. This family consists of AddB proteins of the alphaproteobacteial type. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274300 [Multi-domain] Cd Length: 1021 Bit Score: 45.89 E-value: 1.61e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 864 GNLVHAA-----AMLAEDATADRAQLLEYVAARFDA-----IDLAARWMAgpeltRAEAMVDKLLRWLAGnpRRLLAIEH 933
Cdd:TIGR02786 788 GTLIHDIlerfvREYPDPLPADAADALRKIGRAEFAslnlpPTAEALWWP-----RFARAADWFADWERA--RRLDVRRI 860
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2226886089 934 EFAVRLD---DPARPVDLTGRVDRLEVDADGRLVVIDLKTGKSTSVTGAELAEHPQLGAYQAAVEAGGFAEFGDES 1006
Cdd:TIGR02786 861 FAEARGRkelVGERGFTLSGRADRIDRTPDGSAAILDYKTGAPPSGKQVRAGLSPQLALEAALLMRGAFKDIGAPT 936
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
3-393 |
2.83e-04 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 44.86 E-value: 2.83e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 3 GGPGTGKTdtlveAVAA-RVA-------EGTDPERILVL----TFGR--------------RTAT-----TLRHRIEARI 51
Cdd:COG3973 212 GGAGSGKT-----AVALhRAAyllythrERLERGGVLIVgpnrLFLDyisqvlpslgeegvVQTTfgdlvPELLGVEATA 286
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 52 VAaagrvvhEPLVRTF---PAYAfGLLRRAAAARGEPSPRlltgpeQDLIIRELLDVVGPDEdgddpygwppdLRpALRT 128
Cdd:COG3973 287 EE-------DPEVARLkgsLRMA-EVLDRAVRDLEREVPF------EDIRVEGGEVILSAEE-----------IA-EAFY 340
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 129 RAFA----AQLRDLLMRAAERGIGPAQLARLGEQLDRADwpaaARFLREYVAVLALRDATTRGSVAYDPAELVR------ 198
Cdd:COG3973 341 RARRslphNKRRERLRERLLDALKDQLAAELGKLWDEER----DELRRELRRSKPVRAALNRLWPFLDPAELYRdlfsdp 416
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 199 -----AATGLLADDPELLAAERHRL-----------------------------AHVYVDELADTDPAQVDLLARIAdGG 244
Cdd:COG3973 417 ellarAAGWLSPEERALLLRPTRELkkgrwtvadvalldelaellggpdrtwtyGHVVVDEAQDLSPMQWRVLKRRF-PS 495
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 245 RSLVAFADPDSSTYSFRGAdptivSTFPQRFRTMSGAPAATVTLHTSYRAGSRLLAATNRLARRLrgpvghrelrpLPDA 324
Cdd:COG3973 496 ASFTIVGDLAQAIHPYRGA-----ESWEEVLEPLGGDRARLVELTKSYRSTAEIMEFANRVLRAA-----------GPDL 559
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2226886089 325 PP--------GSVRVRTFRSATSESTYVAHALREAhlvDGVPWSRMAVIVRsTARQLPSLQRALHAVAVPTVVHAED 393
Cdd:COG3973 560 PPpesvrrhgEPPRVVRVPSEAELAAAVVEAVREL---LAEGEGTIAVICK-TAREAEALYAALKAGLPVTLIDDES 632
|
|
| COG3893 |
COG3893 |
Inactivated superfamily I helicase [Replication, recombination and repair]; |
5-627 |
1.29e-03 |
|
Inactivated superfamily I helicase [Replication, recombination and repair];
Pssm-ID: 443100 [Multi-domain] Cd Length: 965 Bit Score: 42.85 E-value: 1.29e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 5 PGTGKTDTLVEAVAARVAEG-TDPERILVLTFGRRTATTLRhrieARIVAAAGRVVHEPLVRTFPAYAFGLLRRAAAARG 83
Cdd:COG3893 8 PGAPFLDALAAGLLARLAGDpLALARVTILLPTRRAARALR----EAFLRLLGRALLLPRIRPLGDLDEDELLLDLPPAI 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 84 EPSPRLLtgpeqdlIIRELLDvvgpdedgddpyGWPPDLRPALRTRAF--AAQLRDLLMRAAERGIGPAQLARLGEQLDR 161
Cdd:COG3893 84 SPLERRL-------LLARLVR------------RWADALVPASPADALdlADSLARLMDELETEGVDLEALADLVPDDLA 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 162 ADWPAAARFLReyvAVLALRDATTRGSVAYDPAELVRAATGLLADdpellAAERHRLAHVYVDELADTDPAQVDLLARIA 241
Cdd:COG3893 145 GHWQRTLDFLK---IVTEAWPAILAERGLIDPAARRRALLEALAA-----RWRAAPAGPVIAAGSTGSTPATARLLAAVA 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 242 DGGRSLVAFADPDssTYSFRGADPTIVSTFPQ-RFRTMSGAPAATVTLHTSYRAGSRLLAATNRLARRLRGPVGHRELRP 320
Cdd:COG3893 217 RLPQGAVVLPGLD--LDLDEAAWAALAEDHPQyGLKRLLDRLGVTREDVRPWGATPALPARARLLSEALRPAETTDAWRD 294
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 321 LPDAPPGSVRVRTFRSATSESTYVAHALREAHLVDGvpwSRMAVIV--RSTARQ-LPSLQRAlhavavptVVHAED---L 394
Cdd:COG3893 295 LGAAALAGLTLIEAADPEEEALAIALALREALEEPG---RTAALVTpdRALARRvAAELERW--------GIEVDDsagW 363
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 395 PLHLQPAVAPLLLLLRCALEPdrLDEEAAVALLHSPLGGADPLAERRLRQgLRALALAVgDRRPSGELLVEALRDptelv 474
Cdd:COG3893 364 PLSTTPAGALLRLLLELAAEP--LAPVALLALLKHPLVRLGLGRGDHRRA-VRALELAL-RRGGRPAPGLAGLRA----- 434
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 475 AIERRWAAPAQTVAALLGTARTAAA--RPGATAEDVLWAVWqATGLAERWHRITARGPAMDGEpdtvprmraAAADRDLD 552
Cdd:COG3893 435 ALARARPDDAEAAAALLDRLEAALAplLALFAAGKRPLADW-LAALRALLEALGADEEGGEDA---------LWAGEAGE 504
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2226886089 553 AVVVLFDTAARFVDRLPGARIEVFLDhVLGQQLPADTLAPSADRGEAVRLLTAHAAKGLEWDLVVVAGVQEGVWP 627
Cdd:COG3893 505 ALLELLAELAAAAGAGGPLSAAEYPA-LLRALLEGTTVRPPGGPHPRVQILGLLEARLQRFDAVILGGLNEGVWP 578
|
|
| recB |
PRK10876 |
exonuclease V subunit beta; Provisional |
171-334 |
1.68e-03 |
|
exonuclease V subunit beta; Provisional
Pssm-ID: 236784 [Multi-domain] Cd Length: 1181 Bit Score: 42.65 E-value: 1.68e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 171 LREYVAVLAL---RDAT-----TRGSVAYDPAeLVRAATGLLADDPELLA-AERHRLAHVYVDELADTDPAQVDLLARIA 241
Cdd:PRK10876 323 LRDLVITRALaeiRETVaqekrRRGELGFDDL-LSRLDSALQSEGGEALAaAIRTRYPVAMIDEFQDTDPQQYRIFRRIY 401
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 242 DG--GRSLVAFADPDSSTYSFRGADptIVSTFPQRfrtmsGAPAATVTLHTSYRAGSRLLAATNRLARRLRGPVGHRELR 319
Cdd:PRK10876 402 RHqpETALLLIGDPKQAIYAFRGAD--IFTYMKAR-----SEVSAHYTLDTNWRSAPGMVNSVNKLFSQTDDPFLFREIP 474
|
170
....*....|....*
gi 2226886089 320 PLPDAPPGSVRVRTF 334
Cdd:PRK10876 475 FIPVKAAGKNQALRF 489
|
|
| COG3903 |
COG3903 |
Predicted ATPase [General function prediction only]; |
120-528 |
1.77e-03 |
|
Predicted ATPase [General function prediction only];
Pssm-ID: 443109 [Multi-domain] Cd Length: 933 Bit Score: 42.31 E-value: 1.77e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 120 PDLRPALRTRAFAAQLRDLLMRAAERGIGPAQLARLGEQLDRADWPAAARFLREYVAVLALRDATTRGSVAYDPAELVRA 199
Cdd:COG3903 526 DNLRAALRWALAHGDAELALRLAAALAPFWFLRGLLREGRRWLERALAAAGEAAAALAAAAALAAAAAAARAAAAAAAAA 605
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 200 ATGLLADDPELLAAERHRLAHVYVDELADTDPAQVDLLARIADGGRSLVAFADPDSSTYSFRGADPTIVSTFPQRFRTMS 279
Cdd:COG3903 606 AAAAAAAAAAAAAAAAALLLLAALAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAALAAAAAAAAAAAAAAAAAAA 685
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 280 GAPAATVTLHTSYRAGSRLLAATNRLARRLRGPVGHRELRPLPDAPPGSVRVRTFRSATSESTYVAHALREAHLVDGvpW 359
Cdd:COG3903 686 ALAAAAAALAAAAAAAALAAAAAAALAAAAAAAAAAAAAAALLAAAAAAALAAAAAAAALALAAAAAAAAAAAAAAA--L 763
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 360 SRMAVIVRSTARQLPSLQRALHAVAVPTVVHAEDLPLHLQPAVAPLLLLLRCALEPDRLDEEAAVALLHSPLGGADPLAE 439
Cdd:COG3903 764 AAAAAAAALAALLLALAAAAAALAAAAAAAAAAAAAAAAAAAAAAAAAAAAALAAAAAAAAAAAAALAAALAAAAAAAAA 843
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 440 RRLRQGLRALALAVGDRRPSGELLVEALRDPTELVAIERRWAAPAQTVAALLGTARTAAARPGATAEDVLWAVWQATGLA 519
Cdd:COG3903 844 AAAAAAAAAALAAALAAAAAAAAAAALAAAAAAAAAAAAALLAAAAAAAAAAAAAAAAAAALAAAAAAAAAAALAAAAAA 923
|
....*....
gi 2226886089 520 ERWHRITAR 528
Cdd:COG3903 924 AAAAAAAAA 932
|
|
| TIGR03623 |
TIGR03623 |
probable DNA repair protein; Members of this protein family are bacterial proteins of about ... |
864-996 |
3.02e-03 |
|
probable DNA repair protein; Members of this protein family are bacterial proteins of about 900 amino acids in length. Members show extended homology to proteins in TIGR02786, the AddB protein of double-strand break repair via homologous recombination. Members of this family, therefore, may be DNA repair proteins.
Pssm-ID: 274682 [Multi-domain] Cd Length: 874 Bit Score: 41.57 E-value: 3.02e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 864 GNLVHAA-----------AMLAEDATADRAQLL-EYVAARFDAIDLAARWMAGPELTRAEAM--VDKLLRWLAGNPRR-- 927
Cdd:TIGR03623 637 GTLVHRVlelfwerlknqEALNALDEAELEQLIaEAIEEALAEERARHSQTFPERFLELEQErlLQLLLEWLELERKRpp 716
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2226886089 928 --LLAIEHEFAVRLDdparPVDLTGRVDRLEVDADGRLVVIDLKTGK-STSVTGAELAEHPQLGAYQAAVEA 996
Cdd:TIGR03623 717 feVVATEQNHSIEIG----GLELKLRIDRIDRLADGSRLIIDYKTGApSVKDWLGERPVEPQLPLYALLAED 784
|
|
| NucS-like |
cd22341 |
Mismatch restriction endonuclease NucS and similar nucleases; Archaeal mismatch restriction ... |
886-974 |
6.43e-03 |
|
Mismatch restriction endonuclease NucS and similar nucleases; Archaeal mismatch restriction endonuclease NucS and its ortholog EndoMS specifically cleave dsDNA containing mismatched bases. They belong to a superfamily of PDDEXK 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: 411745 [Multi-domain] Cd Length: 237 Bit Score: 39.69 E-value: 6.43e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226886089 886 EYVAARFDAIDLAARWMAGPEltraEAMVDkllrWLAGNPRR----LLAIEHEFAVrlddPARPVDLTGRvdrlevDADG 961
Cdd:cd22341 108 VELLTAEDLEDEEELELGGLE----KDLED----YLARNPELieegLRIIGREYPT----PVGRIDILAK------DKDG 169
|
90
....*....|...
gi 2226886089 962 RLVVIDLKTGKST 974
Cdd:cd22341 170 NLVVIELKRGRAD 182
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
2-44 |
7.24e-03 |
|
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: 37.85 E-value: 7.24e-03
10 20 30 40
....*....|....*....|....*....|....*....|....
gi 2226886089 2 LGGPGTGKTDTLVEAVAARVA-EGTDPERILVLTFGRRTATTLR 44
Cdd:cd17914 5 QGPPGTGKTRVLVKIVAALMQnKNGEPGRILLVTPTNKAAAQLD 48
|
|
| |
