|
Name |
Accession |
Description |
Interval |
E-value |
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
1-672 |
0e+00 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 1488.56 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 1 MRLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKEARGLM 80
Cdd:PRK10919 1 MRLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGLM 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 81 ISTFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPSQAAASAIGER 160
Cdd:PRK10919 81 ISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPAQAAAGAKGER 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 161 DRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVV 240
Cdd:PRK10919 161 DRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVV 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 241 GDDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGAELKVLSANNE 320
Cdd:PRK10919 241 GDDDQSIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGDELKVLSANNE 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 321 EHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDS 400
Cdd:PRK10919 321 EHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDS 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 401 AFLRIVNTPKREIGPATLKKLGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQRLAEREPIAAVRDLIH 480
Cdd:PRK10919 401 AFLRIVNTPKREIGPATLQKLGEWAMTRNKSLFTASFDMGLSQTLSGRGYESLTRFTHWLAEIQRLAEREPVAAVRDLIH 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 481 GMDYESWLYETSPSPKAAEMRMKNVNQLFSWMTEMLEGSELDEPMTLTQVVTRFTLRDMMERGESEEELDQVQLMTLHAS 560
Cdd:PRK10919 481 GIDYESWLYETSPSPKAAEMRMKNVNQLFSWMTEMLEGSELDEPMTLTQVVTRFTLRDMMERGESEEELDQVQLMTLHAS 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 561 KGLEFPYVYMVGMEEGFLPHQSSIDEDNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQDDLIW 640
Cdd:PRK10919 561 KGLEFPYVYLVGMEEGLLPHQSSIDEDNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQDDLIW 640
|
650 660 670
....*....|....*....|....*....|..
gi 49176407 641 EQERKVVSAEERMQKGQSHLANLKAMMAAKRG 672
Cdd:PRK10919 641 EQERKVVSAEERMQKGQSHLANLKAMLAAKRG 672
|
|
| rep |
TIGR01074 |
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. ... |
2-664 |
0e+00 |
|
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130146 [Multi-domain] Cd Length: 664 Bit Score: 1282.39 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 2 RLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKEARGLMI 81
Cdd:TIGR01074 1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARGLTI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 82 STFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPSQAAASAIGERD 161
Cdd:TIGR01074 81 STFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGLIKDDKDLLDKLISTISNWKNDLLTPEQALASARGERE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 162 RIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVG 241
Cdd:TIGR01074 161 QTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTVVG 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 242 DDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGAELKVLSANNEE 321
Cdd:TIGR01074 241 DDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVFEKKLFSELGYGEKIKVIECNNEE 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 322 HEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSA 401
Cdd:TIGR01074 321 HEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALMQNRIPYKLSGGTSFFSRPEIKDLLSYLRLLVNPDDDAA 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 402 FLRIVNTPKREIGPATLKKLGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQRLAER-EPIAAVRDLIH 480
Cdd:TIGR01074 401 FLRIVNTPKREIGPATLEKLGELAMERNKSLFTASFDMGLLQTLSGRGYESLQRFTDWLVEIRRLAERsEPIEAVRSLIE 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 481 GMDYESWLYETSPSPKAAEMRMKNVNQLFSWMTEMLEGSELDEPMTLTQVVTRFTLRDMMERGESEEELDQVQLMTLHAS 560
Cdd:TIGR01074 481 DIDYENWLYETSPSPKAAEMRMKNVNTLFSWFKEMLEGDEEDEPMTLTQVVTRLTLRDMLERGEDEEELDQVQLMTLHAS 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 561 KGLEFPYVYMVGMEEGFLPHQSSIDEDNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQDDLIW 640
Cdd:TIGR01074 561 KGLEFPYVFIVGMEEGILPHQSSIEEDNVEEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLDELPQEDLQW 640
|
650 660
....*....|....*....|....
gi 49176407 641 EQERKVVSAEERMQKGQSHLANLK 664
Cdd:TIGR01074 641 EGDDPVVSAEEKMEKGQAHLANLR 664
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
1-656 |
0e+00 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 844.99 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 1 MRLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKeARGLM 80
Cdd:COG0210 5 AGLNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRL-ARGLW 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 81 ISTFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGL-IEDDKVLLQQLISTISNWKNDLKTPSQAAA-SAIG 158
Cdd:COG0210 84 VGTFHSLALRILRRHAELLGLPPNFTILDGDDQLRLIKELLKELgLDEKRFPPRELLSLISRAKNEGLTPEELAElLAAD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 159 ERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFT 238
Cdd:COG0210 164 PEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYELLRLLAGDGRNLC 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 239 VVGDDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGAELKVLSAN 318
Cdd:COG0210 244 VVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDNGEGEKVRLYVAP 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 319 NEEHEAERVTGELIAHHfVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDD 398
Cdd:COG0210 324 DEEEEARFVADEIRELH-EEGVPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVGGLRFYERAEIKDLLAYLRLLANPDD 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 399 DSAFLRIVNTPKREIGPATLKKLGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQRLAEREPIA-AVRD 477
Cdd:COG0210 403 DVALLRILNVPRRGIGAATLERLREAAREEGISLLEALRDLGELAGLSGRAAKALRRFAELLEALRAAAERLPLEeLLEA 482
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 478 LIHGMDYESWLYETspSPKAAEMRMKNVNQLFSWMTEMlegSELDEPMTLTQVVTRFTLRDMMERGESEEelDQVQLMTL 557
Cdd:COG0210 483 LLDESGYEEELREE--AGEEAERRLENLEELVDAAARF---EERNPGASLEAFLEELALLSDLDAADEDE--DAVTLMTL 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 558 HASKGLEFPYVYMVGMEEGFLPHQSSI-DEDNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQD 636
Cdd:COG0210 556 HAAKGLEFPVVFLVGLEEGLFPHQRSLdDEEELEEERRLFYVAITRARERLYLTYAASRRLWGETQDNEPSRFLDELPEE 635
|
650 660
....*....|....*....|
gi 49176407 637 DLIWEQERKVVSAEERMQKG 656
Cdd:COG0210 636 LLEWVRPKAEAAAAAASAAA 655
|
|
| pcrA |
TIGR01073 |
ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. ... |
3-645 |
0e+00 |
|
ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273429 [Multi-domain] Cd Length: 726 Bit Score: 620.63 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGrKEARGLMIS 82
Cdd:TIGR01073 5 LNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG-PVAEDIWIS 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 83 TFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLLQQLIS-TISNWKNDLKTPSQAAASAIGERD 161
Cdd:TIGR01073 84 TFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILgTISNAKNELLPPEDFAKEATNYFE 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 162 RIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVG 241
Cdd:TIGR01073 164 KVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLCVVG 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 242 DDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGAELKVLSANNEE 321
Cdd:TIGR01073 244 DADQSIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKNLWTENSSGDKITYYEADTER 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 322 HEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSA 401
Cdd:TIGR01073 324 DEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKANIPYKIVGGLKFYDRKEIKDILAYLRVIANPDDDLS 403
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 402 FLRIVNTPKREIGPATLKKLGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQRLAEREPIAAVRDLIhg 481
Cdd:TIGR01073 404 LLRIINVPKRGIGASSLEKIVNYALELNISLFEAIGEIDEIGGLAAKSANALLAFATMIENLRQQQEYLSPTELVEEV-- 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 482 MDYESWL----YETSPSpkaAEMRMKNVNQLFSWMTEMLEGSELDepmTLTQVVTRFTLRDMMERGESEEELDQVQLMTL 557
Cdd:TIGR01073 482 LDKSGYRemlkAEKTEE---AQSRLENLDEFLSVTKEFEDESEDK---SLIDFLTDLALVSDLDELEETEEGGAVTLMTL 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 558 HASKGLEFPYVYMVGMEEGFLPHQSSI-DEDNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLELPQD 636
Cdd:TIGR01073 556 HAAKGLEFPVVFLIGMEEGVFPHSRSLmDEKELEEERRLAYVGITRAEEELYLTHATMRTLFGRIQMNPPSRFLNEIPAE 635
|
....*....
gi 49176407 637 DLIWEQERK 645
Cdd:TIGR01073 636 LLETASTGR 644
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
3-636 |
5.08e-170 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 503.25 E-value: 5.08e-170
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKeARGLMIS 82
Cdd:PRK11773 10 LNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTS-QGGMWVG 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 83 TFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKvllQ----QLISTISNWKNDLKTPSQAAASAig 158
Cdd:PRK11773 89 TFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEK---QwpprQAQWYINGQKDEGLRPQHIQSYG-- 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 159 erDRIFAHCYGLYDAHLKACN---VLDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRA 235
Cdd:PRK11773 164 --DPVEQTWLKIYQAYQEACDragLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDTG 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 236 RFTVVGDDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGAELKVL 315
Cdd:PRK11773 242 KVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGKELWTDGGDGEPISLY 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 316 SANNEEHEAERVTGEliAHHFVNK-TQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLT 394
Cdd:PRK11773 322 CAFNELDEARFVVER--IKTWQDNgGALSDCAILYRSNAQSRVLEEALLQAGIPYRIYGGMRFFERQEIKDALAYLRLIA 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 395 NPDDDSAFLRIVNTPKREIGPATLKKLGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQRLAEREPIAA 474
Cdd:PRK11773 400 NRNDDAAFERVVNTPTRGIGDRTLDVVRQTARDRQLTLWQACRALLQEKVLAGRAASALQRFIELIDALAQETADMPLHE 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 475 VRDLihgMDYESWLYETSPSPKA--AEMRMKNVNQLFSwMTEMLEGSELDEPMT-LTQVVTRFTLrdmmERGES--EEEL 549
Cdd:PRK11773 480 QTDR---VIKDSGLRAMYEQEKGekGQARIENLEELVT-ATRQFSYPDEDEDLTpLQAFLSHAAL----EAGEGqaDAHE 551
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 550 DQVQLMTLHASKGLEFPYVYMVGMEEGFLPHQSSIDE-DNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSR 628
Cdd:PRK11773 552 DAVQLMTLHSAKGLEFPLVFIVGMEEGLFPSQMSLEEgGRLEEERRLAYVGITRAMQKLTLTYAESRRLYGKEVYHRPSR 631
|
....*...
gi 49176407 629 FLLELPQD 636
Cdd:PRK11773 632 FIREIPEE 639
|
|
| uvrD |
TIGR01075 |
DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, ... |
3-648 |
1.27e-161 |
|
DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130147 [Multi-domain] Cd Length: 715 Bit Score: 481.61 E-value: 1.27e-161
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGrKEARGLMIS 82
Cdd:TIGR01075 5 LNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG-TSARGMWIG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 83 TFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLL-QQLISTISNWKNDLKTPSQAAAsaigERD 161
Cdd:TIGR01075 84 TFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPpRQAMWYINNQKDEGLRPSHIQA----FDN 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 162 RIFAHCYGLYDAHLKACN---VLDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFT 238
Cdd:TIGR01075 160 PVERTWIKIYQAYQEACDragLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVM 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 239 VVGDDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGAELKVLSAN 318
Cdd:TIGR01075 240 IVGDDDQSIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGKNLWTDGEVGEPISLYSAF 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 319 NEEHEAERVTGElIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDD 398
Cdd:TIGR01075 320 NELDEARFVVSR-IKTWQRNGGALDECAVLYRSNAQSRVLEEALLQASIPYRIYGGMRFFERQEIKDALAYLRLIANRND 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 399 DSAFLRIVNTPKREIGPATLKKLGEWAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFthwLAEIQRLAEREPIAAVRDL 478
Cdd:TIGR01075 399 DAAFERVINTPTRGIGDRTLDVVRQAARDRGLTLWQAARELTQEKVLAGRAASALQRF---VELIEALANETADMPLHVQ 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 479 IHGMDYESWLYETSPSPKA--AEMRMKNVNQLFSWMTEMLEGSELDEPMTLTQVVTRFTLrdmmERGE--SEEELDQVQL 554
Cdd:TIGR01075 476 TDHVIKDSGLREMYQQEKGekGQARIENLEELVTATRQFSLPENDEDMTPLTAFLSHAAL----EAGEgqADAGQDAVQL 551
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 555 MTLHASKGLEFPYVYMVGMEEGFLPHQSSIDE-DNIDEERRLAYVGITRAQKELTFTLCKERRQYGELVRPEPSRFLLEL 633
Cdd:TIGR01075 552 MTLHSAKGLEFPLVFLVGMEEGMFPSQMSLDEgGRLEEERRLAYVGITRAMQKLTITYAETRRLYGKEVYHIPSRFIREL 631
|
650
....*....|....*
gi 49176407 634 PQDDLIWEQERKVVS 648
Cdd:TIGR01075 632 PEECLHEVRLRAQVS 646
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
3-266 |
1.56e-110 |
|
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: 334.21 E-value: 1.56e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKEARGLMIS 82
Cdd:pfam00580 1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAELSELNIS 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 83 TFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIED-DKVLLQQ--LISTISNWKNDLKTPSQAAASAIGE 159
Cdd:pfam00580 81 TFHSFCLRILRKYANRIGLLPNFSILDELDQLALLKELLEKDRLNlDPKLLRKleLKELISKAKNRLLSPEELQQGAADP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 160 RDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTV 239
Cdd:pfam00580 161 RDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLLKLLAGGHENLFL 240
|
250 260
....*....|....*....|....*..
gi 49176407 240 VGDDDQSIYSWRGARPQNLVLLSQDFP 266
Cdd:pfam00580 241 VGDPDQSIYGFRGADIENILKFEKDFP 267
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
1-617 |
5.97e-92 |
|
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: 304.19 E-value: 5.97e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 1 MRLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGR------- 73
Cdd:COG1074 4 PPWTDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIRERLAEaadledp 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 74 -----KEAR-----------GLMISTFHTLGLDIIKREYAALGMKANFSLFDDTDQLAL-------------------LK 118
Cdd:COG1074 84 dleelARARrrlaralenldRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEALLLeeavddllreayapldalaLA 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 119 ELTEGLIEDDKVLLQQL-----ISTISNWKNDLKTPSQA----AASAIGERDRI---------------------FAHCY 168
Cdd:COG1074 164 RLLDAFGRDDDSLEELLlalykLRSRPDWLEELAELDEAlealREALLKAKEALaalrealaaaaapllaallrlLAAVL 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 169 GLYDAHLKACNVLDFDDLILLPTLLLQRN--EEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVG----SRARFTVVGD 242
Cdd:COG1074 244 ARYERRKRERGLLDFDDLLHRALRLLRDEdaPWVAERLRERYRHILVDEFQDTSPLQWEILRRLAGealaDGRTLFLVGD 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 243 DDQSIYSWRGARPQNLVLLSQDFPA---LKVIKLEQNYRSSGRILKAANiliannpHVFEKRL---FSELGYGA------ 310
Cdd:COG1074 324 PKQSIYRFRGADPELFLEARRALEGrvdGERLTLTTNFRSTPEVVDAVN-------ALFAQLMgagFGEIPYEPvealrp 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 311 ------ELKVLSANNE------EHEAERVTGE----LIAHHFVNKT----QYKDYAILYRGNHQSRVFEKFLMQNRIPYK 370
Cdd:COG1074 397 gaypavELWPLEPDDVseedarEREARAVAARirrlLAEGTTVEGGgrpvRPGDIAVLVRTRSEAAAIARALKAAGIPVA 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 371 ISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFLRIVNTPkreIGPATLKKLGEWAMTRNKSMFTASFdmglsqtlsgRGY 450
Cdd:COG1074 477 ASDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSP---LFGLSDEDLAALAADRKGESLWEAL----------RAY 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 451 EALTRFTHWLAEIQRLAEREPIAA-VRDLIHGMDYESWLYETSpspkAAEMRMKNVNQLFSWMtEMLEGSELDEPMTLTQ 529
Cdd:COG1074 544 ERLARALERLRALRELARRLGLAElLERLLEETGLLERLLALP----GGERRLANLLHLDELL-QLALEYEQTGGPGLAG 618
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 530 VVTRftLRDMMERGESEEEL------DQVQLMTLHASKGLEFPYVymvgmeegFLP-HQSSIDEDNIDEERRLAYVGITR 602
Cdd:COG1074 619 FLRW--LERLIEDGGDEEKRrlesdaDAVRIMTIHKSKGLEFPVV--------FLPaLRERARAEELAEELRLLYVALTR 688
|
730
....*....|....*
gi 49176407 603 AQKELTFTLCKERRQ 617
Cdd:COG1074 689 ARDRLVLSGAVKKKD 703
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
271-614 |
1.85e-79 |
|
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: 257.33 E-value: 1.85e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 271 IKLEQNYRSSGRILKAANILIANNPHV----FEKRLFSELGYGAELKVLSANNEEHEAERVTGELIAHHFVNKtQYKDYA 346
Cdd:pfam13361 1 IHLEINYRSTKNLLKAANEFINNNFGRatiyPKKILAETVEDGEKIKIIEAETEEEEAEWIALEIKKLVARDE-KYNDIA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 347 ILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFLRIVNTPKREIGPATLKKLGEWam 426
Cdd:pfam13361 80 VLTRSNSDADLIEEALKKLGIPYFVVGQTKFFRREEIKDILAYLRLIANKHDSISLKRILNGPKRGIGNATLERIREY-- 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 427 tRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQR------LAEREPIAAVRDLIHGMDYES-------------- 486
Cdd:pfam13361 158 -KKRGLRLSDFINPDTLTYGDPFVIALEQDNIVVFDVETtgldttEDEIIQIAAIKLNKKGVVIESferflrlkkpvgds 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 487 ---------WLYETSPSPKAA--EM--RMKNVNQLFSWMTEMLEGSELDEPMT-LTQVVTRFTLRDMMERGESEEEldQV 552
Cdd:pfam13361 237 lqvhgfsdeFLQENGETPAEAlrDFleKLENLRELYSILREYDDIEETPEPEDaLRNFLEIATLSNSELEGSDIKE--RI 314
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 49176407 553 QLMTLHASKGLEFPYVYMVGMEEGFLPHQ-SSIDEDNIDEERRLAYVGITRAQKELTFTLCKE 614
Cdd:pfam13361 315 PIMTIHQAKGLEFDTVFLAGLEEGIFPSYrSIKDEGNLEEERRLFYVAITRAKKRLYISYSKS 377
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
4-277 |
1.90e-79 |
|
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: 250.51 E-value: 1.90e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 4 NPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKEARGLMIST 83
Cdd:cd17932 1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLGEQLASGVWIGT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 84 FHTLGLDIIKREYaalgmkanfslfddtdqlallkelteglieddkvllqqlistisnwkndlktpsqaaasaigerdri 163
Cdd:cd17932 81 FHSFALRILRRYG------------------------------------------------------------------- 93
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 164 fahcyglydahlkacnvlDFDDLILLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDD 243
Cdd:cd17932 94 ------------------DFDDLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDGKNLFVVGDD 155
|
250 260 270
....*....|....*....|....*....|....
gi 49176407 244 DQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNY 277
Cdd:cd17932 156 DQSIYGFRGADPENILDFEKDFPDAKVIKLEENY 189
|
|
| addA_Gpos |
TIGR02785 |
helicase-exonuclease AddAB, AddA subunit, Firmicutes type; AddAB, also called RexAB, ... |
7-607 |
3.56e-32 |
|
helicase-exonuclease AddAB, AddA subunit, Firmicutes 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 Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274299 [Multi-domain] Cd Length: 1230 Bit Score: 133.68 E-value: 3.56e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 7 QQQAVeFVTGP-CLVLAGAGSGKTRVITNKIAHLIRGcGYQARHIAAVTFTNKAAREMKERVG--------QTLGRKEAR 77
Cdd:TIGR02785 6 QWQAI-YTRGQdILVSASAGSGKTAVLVERIIRKITR-GVDVDRLLVVTFTNAAAREMKERIAealekelvQEPNSKHLR 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 78 GLM-------ISTFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIE-----DDKVLLQQLISTISN---- 141
Cdd:TIGR02785 84 RQLallntanISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQLLLIKEVLDDVFEeeyykEDKEAFFELVDNFSGdrsd 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 142 ----------------------WKNDLKTPSQAAASAIGE---------------------------------------- 159
Cdd:TIGR02785 164 dglrdlilqlydfsrstpnpekWLNNLAEAYEVKEKFTIEslklqqqikellkneleglqeklqralelfmaedglaprl 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 160 ---------------------------------------------------------RD--------------------- 161
Cdd:TIGR02785 244 enfqldlqnideliqeslaqadwnelrkavaafkfknlkaakgdeedadlleeadklREeakkqleklktdyftrseedh 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 162 -RIFAHCYGL--------------YDAHLKACNVLDFDDLI----LLPTLLLQRNEEVRKRWQNKIRYLLVDEYQDTNTS 222
Cdd:TIGR02785 324 lRIMQEMKPVvktlvqlvkdfierFGAEKREKNILDFSDLEhyalQILTNENESPSEAAEFYREKFHEVLVDEYQDTNLV 403
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 223 QYELVKLLVGSRA----RFtVVGDDDQSIYSWRGARPQNLVLLSQDFPAL-----KVIKLEQNYRSSGRILKAANILI-- 291
Cdd:TIGR02785 404 QESILQLVKRGPEeegnLF-MVGDVKQSIYRFRQADPLLFLEKYHRFAQEgeehgKRIDLAENFRSRAEVLDTTNFLFkq 482
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 292 ------------------------------ANNPHVFEKRLF-SELGYGAELKVLSANNEEHEAERVTGE---LIAHHF- 336
Cdd:TIGR02785 483 lmdeevgeidydeeaqlkfgaakypenpdnKTEELLYEKLLIeEAEEEEIDEEAEILDKAQQEATMVAERikaLIKEGFk 562
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 337 --------VNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDD---SAFLR- 404
Cdd:TIGR02785 563 vydkktgtYRPVTYRDIVILTRSRGWNLQIMEEFKKYGIPVFANDAENYFQTTEVRVMLSLLRVIDNPYQDiplVAVLRs 642
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 405 -IVNTPKREIgpATLKklgewAMTRNKSMFTASFDMGLSQTLSGRGYEALTRFTHWLAEIQRLAEREPIAavrDLIHGMD 483
Cdd:TIGR02785 643 pIVGFDENEL--ALIR-----LENKDSSYYEAVKDYVKAGLIEDELYEKLNTFLDSLQKWREFARTHSVS---ELIWKIY 712
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 484 YESWLYETSPSPKAAEMRMKNVNQLFSWMTEMLEGSEldepMTLTQVVtRFtLRDMMERGE-------SEEELDQVQLMT 556
Cdd:TIGR02785 713 NDTGYYDYVGGLPGGKQRQANLYALYERARQYESTSF----KGLFQFI-RF-IERMQERQKdlasavaVGEAENAVRLMT 786
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 557 LHASKGLEFPYVYMVGMEEGF----------LPHQSSIDEDNID-------------------------EERRLAYVGIT 601
Cdd:TIGR02785 787 IHKSKGLEFPVVFVLGMGKQFnkqdlnssylLDRQLGLGIKYIDpqerlsypslpkvaikqkmkrellsEEMRVLYVALT 866
|
....*.
gi 49176407 602 RAQKEL 607
Cdd:TIGR02785 867 RAKEKL 872
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
279-610 |
2.47e-29 |
|
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: 113.48 E-value: 2.47e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 279 SSGRILKAANILIANNPHVFEKRLFSELGYGAELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVF 358
Cdd:cd18807 1 STKNILDAANSLIKQNKNRPKKPLKAGNKSGGPVELLLAKDEADEAKAIADEIKRLIESGPVQYSDIAILVRTNRQARVI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 359 EKFLMqnripykisggtsffsrpeikdllaylrvltnpdddsaflrivntpkreigpatlkklgewamtrnksmftasfd 438
Cdd:cd18807 81 EEALR--------------------------------------------------------------------------- 85
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 439 mglsqtlsgrgyealtrfthwlaeiqrlaerepiaavrdlihgmdyeswlyetspspkaaemrmknvnqlfswmtemleg 518
Cdd:cd18807 --------------------------------------------------------------------------------
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 519 seldepmtltqvvtrftlrdmmergeseeeldqVQLMTLHASKGLEFPYVYMVGMEEGFLPHQSS-----IDEDNIDEER 593
Cdd:cd18807 86 ---------------------------------VTLMTIHASKGLEFPVVFIVGLGEGFIPSDASyhaakEDEERLEEER 132
|
330
....*....|....*..
gi 49176407 594 RLAYVGITRAQKELTFT 610
Cdd:cd18807 133 RLLYVALTRAKKELYLV 149
|
|
| AddB |
COG3857 |
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair]; |
12-669 |
1.81e-25 |
|
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];
Pssm-ID: 443066 [Multi-domain] Cd Length: 1019 Bit Score: 112.53 E-value: 1.81e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 12 EFVTGPclvlagAGSGKTRVITNKIAHLIrgcgyQARHIAAVTFTNKAAREMKERVGQTLGRKEARGLMISTFHTLGLDI 91
Cdd:COG3857 1 RFILGR------AGSGKTTYLLEEIKEEL-----KEGKPIILLVPEQMTFQAERALLKRLGLGGSIRAQVLSFSRLAWRV 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 92 IKREYAAlgmkaNFSLFDDTDQLALLKELTEGLIEDDKVL---------LQQLISTISNWKNDLKTPS--QAAASAIGER 160
Cdd:COG3857 70 LQETGGA-----TRPLLSDAGKRMLLRKILEEHKDELKVFaraadkpgfIEQLAELITELKRYGITPEdlEEAAELLKEK 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 161 DRIFAHCYGLYDAHLKAcNVLDFDDLILLPtlllqrNEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTV- 239
Cdd:COG3857 145 LRDLALIYEAYEEKLAG-RYIDSEDLLRLL------AEKLEKSEFLEGAEIYIDGFTDFTPQELELLEALLKKAKEVTIt 217
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 240 --VGDDDQSIYS---------WRGARPQNLVLLSQDFPALKviKLEQNYRSSGRILKAANIliannphvfekrlfselgy 308
Cdd:COG3857 218 ltLDPDELDLFSatgetyerlLELAKENGVEVEFKKSPELA--HLERNLFAYPPEEEPEGI------------------- 276
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 309 gaelKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYR-----GNHQSRVFEKFLmqnrIPYKISGGTSFFSRPEI 383
Cdd:COG3857 277 ----EIIEAANRRAEVEAVAREIRRLVREEGYRYRDIAVVVRdleayAPLIERVFAEYG----IPYFIDEKRPLSHHPLV 348
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 384 KDLLAYLRVLTNPDDDSAFLRIVNTP-KREIGPATLKKLGEWAMTRN---KSMFTASFDMGLSQTLSGRGY-EALTRFTH 458
Cdd:COG3857 349 ELILSLLELVRSNFRYEDVFRLLKTGlLRPLSREEIDRLENYVLAYGirgRRWLERYLEEEEELTDEEEEDlERLNELRD 428
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 459 WLAE-IQRLAE--------REPIAAVRDLIHGMDYESWLYETSPSPKAAEMRMKN-----VNQLFSWMTEMLEGSElDEP 524
Cdd:COG3857 429 RLLEpLLPLRErlkkaktvREWAEALYEFLEELGVPEKLEEWREAEEAGDLEEAReheqaWNALIELLDELVEVLG-DEK 507
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 525 MTLTQVVTrfTLRDMMER---GESEEELDQVQLMTLHASKGLEFPYVYMVGMEEGFLP---HQSSI-------------- 584
Cdd:COG3857 508 LSLEEFLR--ILESGLEEltfGLIPPSLDQVQVGGLDRARGLDFKAVFVLGLNEGVFParpREDGLlsdeererlnelgl 585
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 585 -----DEDNIDEERRLAYVGITRAQKELTFTLCKERRQYGELvrpEPSRFLLELPQDDLIWEQERKVVSAEERMQKGQSH 659
Cdd:COG3857 586 elpptSRERLLEERFLFYRALTRASERLYLSYPLADEEGKAL---LPSPLIDRLRELFPELEERSLLEEELEYIGTPESA 662
|
730
....*....|
gi 49176407 660 LANLKAMMAA 669
Cdd:COG3857 663 LSELAAALRQ 672
|
|
| helD |
PRK11054 |
DNA helicase IV; Provisional |
3-304 |
3.19e-24 |
|
DNA helicase IV; Provisional
Pssm-ID: 182930 [Multi-domain] Cd Length: 684 Bit Score: 107.73 E-value: 3.19e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 3 LNPGQQQAVefVTGP--CLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGrkeARGLM 80
Cdd:PRK11054 197 LNPSQARAV--VNGEdsLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG---TEDIT 271
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 81 ISTFHTLGLDIIKR-EYAALGM-------KANFSLFDDTDQ-----------------LALLK-ELTEGLIEDDKVLLQQ 134
Cdd:PRK11054 272 ARTFHALALHIIQQgSKKVPVIsklendsKARHALLIAEWRkqcsekkaqakgwrqwlTEELQwDVPEGNFWDDEKLQRR 351
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 135 LISTISNWkNDL---KTPSQAA--ASAIGE-------RDRIFAHCYGLYDAHLKACNVLDFDdlillpTLLLQRNEEVRK 202
Cdd:PRK11054 352 LASRLERW-VSLmrmHGGSQAEmiAQAPEEvrdlfqkRLKLMAPLLKAWKKALKAENAVDFS------GLIHQAVNYLEK 424
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 203 -RWQNKIRYLLVDEYQDTNTSQYELVKLLV--GSRARFTVVGDDDQSIYSWRGArpqNLVL---LSQDFPALKVIKLEQN 276
Cdd:PRK11054 425 gRFISPWKHILVDEFQDISPQRAALLAALRkqNSQTTLFAVGDDWQAIYRFSGA---DLSLttaFHERFGEGDRCHLDTT 501
|
330 340
....*....|....*....|....*...
gi 49176407 277 YRSSGRILKAANILIANNPHVFEKRLFS 304
Cdd:PRK11054 502 YRFNSRIGEVANRFIQQNPHQLKKPLNS 529
|
|
| addA_alphas |
TIGR02784 |
double-strand break repair helicase AddA, alphaproteobacterial type; AddAB, also called RexAB, ... |
171-607 |
1.17e-17 |
|
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: 87.44 E-value: 1.17e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 171 YDAHLKACNVLDFDDLILLPTLLLQRNEE---VRKRWQNKIRYLLVDEYQDTNTSQYELVKLL------------VGSRA 235
Cdd:TIGR02784 351 YARLKKARGLLDFNDLIERTVALLARPGAgawVHYKLDRGIDHILVDEAQDTSPEQWDIIQALaeeffsgegarsGVERT 430
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 236 RFtVVGDDDQSIYSWRGARPQNLVLLSQDFPA--------LKVIKLEQNYRSSGRILKA-----ANI-----LIANNPHV 297
Cdd:TIGR02784 431 IF-AVGDEKQSIYSFQGADPERFAEERREFSRkvravgrkFEDLSLNYSFRSTPDVLAAvdlvfADPenargLSADSDAP 509
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 298 FEKRLFSELGYGAEL-----KVLSANNEEHE---------------AERVTGElIAHHFVNKTQ---------YKDYAIL 348
Cdd:TIGR02784 510 VHEAFRDDLPGRVDLwdlisKEEGEEPEDWTdpvdelgerapevrlAERIAAE-IRAWLDRGTPipgrgravrPGDILVL 588
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 349 YRgnHQSRVFEKF---LMQNRIPykISGG-----TSFFSrpeIKDLLAYLRVLTNPDDDSAFLRIVNTPKREIGPATLKK 420
Cdd:TIGR02784 589 VR--KRDAFFSALiraLKRRGIP--VAGAdrlklTSHIA---VKDLMALGRFVLQPEDDLSLAALLKSPLFGLDEDDLFR 661
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 421 LgewAMTRNKSMFTASFdmglsQTLSGRGYEALTRFTHWLAEiqrlAEREPiaaVRDLihgmdYESWLyetspspKAAEM 500
Cdd:TIGR02784 662 L---AAGRSGGSLWAAL-----RRREAEFAATLAVLRDWLSL----ADFLT---PFEF-----YARLL-------GRDGG 714
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 501 RMKNVNQLfswmtemleGSE----LDEPMTLTQVVTRFTLRDM------MERG------ESEEELDQVQLMTLHASKGLE 564
Cdd:TIGR02784 715 RRKLLARL---------GAEaediLDEFLSQALAYERTGLPGLqaflswLEADdpeikrEMDQARDEVRVMTVHGAKGLE 785
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 49176407 565 FPYVYMV-------------------GMEEGFLPHQSSIDEDN--------------IDEERRLAYVGITRAQKEL 607
Cdd:TIGR02784 786 APVVFLVdtgskpfasqraplllatgGSGGKAPLWRPASAFDPslsaaarerlkeraEDEYRRLLYVAMTRAEDRL 861
|
|
| SF1_C |
cd18786 |
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ... |
529-610 |
9.10e-17 |
|
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350173 [Multi-domain] Cd Length: 89 Bit Score: 75.55 E-value: 9.10e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 529 QVVTRF------TLRDMMERGESEEELDQVQLMTLHASKGLEFPYVYMVGMEEGflphqssidedniDEERRLAYVGITR 602
Cdd:cd18786 14 VVLTPYhrdrayLNQYLQGLSLDEFDLQLVGAITIDSSQGLTFDVVTLYLPTAN-------------SLTPRRLYVALTR 80
|
....*...
gi 49176407 603 AQKELTFT 610
Cdd:cd18786 81 ARKRLVIY 88
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
7-251 |
9.68e-17 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 77.26 E-value: 9.68e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 7 QQQAVE--FVTGPCLVLAGAGSGKTRVITNKIAHLIRgCGYQARHIAAVTFTNKAAREMKERVgqtlgrkearGLMISTF 84
Cdd:pfam13245 1 QREAVRtaLPSKVVLLTGGPGTGKTTTIRHIVALLVA-LGGVSFPILLAAPTGRAAKRLSERT----------GLPASTI 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 85 HTLgldiikreyaaLGmkanfslFDDTDQLALLKELTEGLIEDdkvllqqlistisnwkndlktpsqaaasaigerdrif 164
Cdd:pfam13245 70 HRL-----------LG-------FDDLEAGGFLRDEEEPLDGD------------------------------------- 94
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 165 ahcyglydahlkacnvldfddlillptlllqrneevrkrwqnkirYLLVDEYQDTNT-SQYELVKLLVgSRARFTVVGDD 243
Cdd:pfam13245 95 ---------------------------------------------LLIVDEFSMVDLpLAYRLLKALP-DGAQLLLVGDP 128
|
....*...
gi 49176407 244 DQSIYSWR 251
Cdd:pfam13245 129 DQLPSVGP 136
|
|
| PRK13909 |
PRK13909 |
RecB-like helicase; |
22-568 |
2.40e-15 |
|
RecB-like helicase;
Pssm-ID: 237554 [Multi-domain] Cd Length: 910 Bit Score: 80.01 E-value: 2.40e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 22 AGAGSGKTRVITNK-IAHLIRGCgyQARHIAAVTFTNKAAREMKERVGQTL---------------------GRKEARG- 78
Cdd:PRK13909 5 ASAGSGKTFALSVRfLALLFKGA--NPSEILALTFTKKAANEMKERIIDTLlnlekekeeselneleeklglSKEELLNk 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 79 ------------LMISTFHTLgLDIIKREYAA-LGMKANFSLFDDTDQLA---LLKELTEG----------LIEDDKV-- 130
Cdd:PRK13909 83 rdkvyqeflnseLKISTIDAF-FQKILRKFCLnLGLSPDFSIKEDTKEELnekFLSALSKEellellafikQCESKKNns 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 131 ---LLQQL------ISTISNWKN--------------DLKTPSQAAASAI------------------------------ 157
Cdd:PRK13909 162 ffeLLEKLyeknneLKLFEKAKNpiefdeekfleelrSLKQQIQSIETASknakkafkkedfeellnssktwlekeseyr 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 158 -----------GERDRI---------------FAHCYGLYDAHLKAC-------NVLDFDDLILLPTLLLQrNEEVRK-- 202
Cdd:PRK13909 242 yfkklyneeldAEFEELknalkryydakenykLSKLFKLLQLYKEAKnelnkkkNALDFDDISKKVYELLG-EEEIDKdf 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 203 ---RWQNKIRYLLVDEYQDTNTSQYELVKLLV------------GSrarFTVVGDDDQSIYSWRGARPQNLVLLSQDFPa 267
Cdd:PRK13909 321 lyfRLDSKISHILIDEFQDTSVLQYKILLPLIdeiksgegqkkfRS---FFYVGDVKQSIYRFRGGKKELFDKVSKDFK- 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 268 LKVIKLEQNYRSSGRILKAAN-ILIANNPHVFEKRLFS--ELGYgaeLKVLSANNEEHE-AERV---TGELIAHHfvnkT 340
Cdd:PRK13909 397 QKVDNLDTNYRSAPLIVDFVNeVFKKKYKNYKTQYAEQhkSGGY---VEVVEVADESEElLEQLlqeIQFLLEKG----I 469
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 341 QYKDYAIL-YRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYLRVLTNPDDDSAFlrivntpkreigpATLK 419
Cdd:PRK13909 470 DPDDIAILcWTNDDALEIKEFLQEQFGIKAVTESSAKLINQPEVKALIEALKYCLFGEEIYKH-------------NVLK 536
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 420 KLGEWAMTRNKSMftaSFDMGLSQTLsgrgYEALTRFTHWLAEIQRLAErepiaavrdliHGMDYEswlyetspspkaae 499
Cdd:PRK13909 537 LLGKEPDKIPSFL---PKEESVAEFV----KKLIEELKLYDENLLKFLE-----------LASGYE-------------- 584
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 500 mrmkNVNqlfswmtEMLEGSE-LDEPMtltqvvtrftlrdmmergeSEEELDQVQLMTLHASKGLEFPYV 568
Cdd:PRK13909 585 ----DIE-------EFLFKLEpCDKEI-------------------ASEESKGVQIMTVHKSKGLEFEHV 624
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
198-331 |
7.18e-13 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 71.82 E-value: 7.18e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 198 EEVRKRWqnKIRYLLVDEYQDTNTSQYELVKLLvGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPALKVIKLEQNY 277
Cdd:COG3973 462 GGPDRTW--TYGHVVVDEAQDLSPMQWRVLKRR-FPSASFTIVGDLAQAIHPYRGAESWEEVLEPLGGDRARLVELTKSY 538
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*
gi 49176407 278 RSSGRILKAAN-ILIANNPHVFEKRLFSELgyGAELKVLSANNEEHEAERVTGEL 331
Cdd:COG3973 539 RSTAEIMEFANrVLRAAGPDLPPPESVRRH--GEPPRVVRVPSEAELAAAVVEAV 591
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
206-277 |
1.01e-12 |
|
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: 65.20 E-value: 1.01e-12
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 49176407 206 NKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQ-----DFPALKVIKLEQNY 277
Cdd:cd17914 45 AQLDNILVDEAAQILEPETSRLIDLALDQGRVILVGDHDQLGPVWRGAVLAKICNEQSlftrlVRLGVSLIRLQVQY 121
|
|
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
6-614 |
5.13e-09 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 59.08 E-value: 5.13e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 6 GQQQ--AVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGcgYQARHIAAVTFTNKAAREMKERVGQTLGR----KEARGL 79
Cdd:COG3972 162 LQQEriARSIPDGPQRIRGVAGSGKTVLLAAKAAYLALK--HPGWRILVTCFNRSLADHLRDLIPRFLRRfsngEPEDNV 239
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 80 MISTFHTLGLDIIKReyaalgmkANFSLFDDTDQLALLKELteglieddkvllqqlistisnwkndlktPSQAAASAIGE 159
Cdd:COG3972 240 KLIVFHAWGGKLLKQ--------YGIPPLTFSQPNEAFDEA----------------------------CKALLEAIQGE 283
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 160 RDRifahcyGLYDAhlkacnvldfddlillptlllqrneevrkrwqnkiryLLVDEYQDTNTSQYELV-KLLVGSRARFT 238
Cdd:COG3972 284 IIP------PIYDA-------------------------------------ILIDEAQDFEPEFLRLLyQLLKPPKKRLI 320
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 239 VVGDDDQSIYSwrgarPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAAniliannpHVFEKRLFSELGygaelkVLSAN 318
Cdd:COG3972 321 WAYDEAQNIYG-----RKIPSAGGIPAGIGRDTILKKNYRNTRPILTFA--------HAFGMGLLRPPG------LLQGD 381
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 319 NEEHEAERvtgeliahhfvnktqykdyailyrgnhqsrvfekflmqnripykiSGGTSFFSRPEIKDLLaylrvltnpDD 398
Cdd:COG3972 382 AEDYEVER---------------------------------------------PGDKVTLIRPPEPAGR---------KG 407
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 399 DSAFLRIVNTPKREIgpatlkklgewamtrnksmftasfdmglsqtlsgrgyealtrftHWLAE-IQRLAEREPIA---- 473
Cdd:COG3972 408 PLPEFKKYDDRAEEL--------------------------------------------EAIAEeIKKNLRDEGLRpsdi 443
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 474 AVrdlIHGMDYESwlyetspspkaaemrmknvNQLFSWMTEMLEGSELDEPMTLTQVVTRFTLRDmmergeseeelDQVQ 553
Cdd:COG3972 444 AV---IYLGNNEA-------------------KELGDRLAAALERQGIDSYIAGARSDPNFFWKD-----------GGVT 490
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 49176407 554 LMTLHASKGLEFPYVYMVGMEegflphQSSIDEDNIDeERRLAYVGITRAQKELTFTLCKE 614
Cdd:COG3972 491 ISTIHRAKGLEAPVVIIVGLD------QLAKGESLER-LRNLLYVAMTRARGWLVVSGSGE 544
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
17-65 |
1.38e-08 |
|
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: 53.26 E-value: 1.38e-08
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 49176407 17 PCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKE 65
Cdd:cd17914 1 LSLIQGPPGTGKTRVLVKIVAALMQNKNGEPGRILLVTPTNKAAAQLDN 49
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
555-607 |
1.74e-08 |
|
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: 463913 [Multi-domain] Cd Length: 52 Bit Score: 51.04 E-value: 1.74e-08
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 49176407 555 MTLHASKGLEFPYVYMVGMEEGFLPHqssidednIDEERRLAYVGITRAQKEL 607
Cdd:pfam13538 5 LTVHKAQGSEFPAVFLVDPDLTAHYH--------SMLRRRLLYTAVTRARKKL 49
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
545-629 |
4.15e-07 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 53.06 E-value: 4.15e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 545 SEEELDQVQL---MTLHASKGLEFPYVYMVgmeegfLPHQSSIDEDnideeRRLAYVGITRAQKELtfTLCKERRQYGEL 621
Cdd:COG0507 432 DPSELDQLELayaITVHKSQGSTFDRVILV------LPSEHSPLLS-----RELLYTALTRARELL--TLVGDRDALARA 498
|
....*...
gi 49176407 622 VRPEPSRF 629
Cdd:COG0507 499 VRRDTARA 506
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
1-73 |
7.03e-07 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 52.29 E-value: 7.03e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 49176407 1 MRLNPGQQQAVEFV--TGPCLVLAG-AGSGKTRVitnkIAHLIRGCGYQARHIAAVTFTNKAAREMKERVG---QTLGR 73
Cdd:COG0507 123 ITLSDEQREAVALAltTRRVSVLTGgAGTGKTTT----LRALLAALEALGLRVALAAPTGKAAKRLSESTGieaRTIHR 197
|
|
| DEAD-like_helicase_N |
cd17912 |
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ... |
18-96 |
6.03e-06 |
|
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.
Pssm-ID: 350670 [Multi-domain] Cd Length: 81 Bit Score: 44.82 E-value: 6.03e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 49176407 18 CLVLAGAGSGKTRVITNKIAHLIRGCGyqarHIAAVTFTNKAAREMK---ERVGQTLGrkEARGLMISTFHTLGLDIIKR 94
Cdd:cd17912 2 ILHLGPTGSGKTLVAIQKIASAMSSGK----SVLVVTPTKLLAHEILiviDEIQ*ILD--PAAGWAWATRALLGLKAEKV 75
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..
gi 49176407 95 EY 96
Cdd:cd17912 76 IG 77
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| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
2-68 |
2.52e-05 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.
Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 45.63 E-value: 2.52e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 49176407 2 RLNPGQQQAVE-FVTGP---CLVLAGAGSGKTRVItNKIAHLIRGCGYQarhIAAVTFTNKAAREMKERVG 68
Cdd:pfam13604 1 TLNAEQAAAVRaLLTSGdrvAVLVGPAGTGKTTAL-KALREAWEAAGYR---VIGLAPTGRAAKVLGEELG 67
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| SF1_C_RecD |
cd18809 |
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ... |
555-609 |
2.74e-05 |
|
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD 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: 350196 [Multi-domain] Cd Length: 80 Bit Score: 42.93 E-value: 2.74e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*
gi 49176407 555 MTLHASKGLEFPYVYMVgmeegflphqssIDEDNIDEERRLAYVGITRAQKELTF 609
Cdd:cd18809 36 MTIHKSQGSEFDRVIVV------------LPTSHPMLSRGLLYTALTRARKLLTL 78
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| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
6-71 |
4.29e-03 |
|
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD 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: 350691 [Multi-domain] Cd Length: 155 Bit Score: 38.30 E-value: 4.29e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 49176407 6 GQQQAVEFVTGPCLVL--AGAGSGKTRVItNKIAHLIRGCGYQarhIAAVTFTNKAAREMKERVG---QTL 71
Cdd:cd17933 1 EQKAAVRLVLRNRVSVltGGAGTGKTTTL-KALLAALEAEGKR---VVLAAPTGKAAKRLSESTGieaSTI 67
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