|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
13-652 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1166.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 13 SDYAASNIQVLEGLEAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQH 92
Cdd:PRK05644 6 QEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIH 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 93 PAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGVPEDPVRRVRPMEag 172
Cdd:PRK05644 86 PKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVIGETD-- 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 173 eETGTRIRFWPDGDIFKTTEFRFETLSDRLRELAFLNAGVRIRVEDHREEDEglARETYHSEEGIIGFVDYLDEARDSIL 252
Cdd:PRK05644 164 -ETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGEE--KEETFHYEGGIKEYVEYLNRNKEPLH 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 253 DETIYIAETDGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKFDLSGDDFRE 332
Cdd:PRK05644 241 EEPIYFEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVRE 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 333 GLTAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKARELVQRKDA 412
Cdd:PRK05644 321 GLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRKSA 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 413 FSGGSLPGKLADCSSRDPEEGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTG 492
Cdd:PRK05644 401 LESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTG 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 493 LtstEEEFNMNEMRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQEiYCWSDEEMQTR 572
Cdd:PRK05644 481 I---GDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSDEELDEI 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 573 MAELRADGNS-PSMQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDAAAADRLFSTLMGDSVEPRREFIERNAKY-ATI 650
Cdd:PRK05644 557 LAELKLKGNPkYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAKYvRNL 636
|
..
gi 2018945971 651 DA 652
Cdd:PRK05644 637 DI 638
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
13-652 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1155.93 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 13 SDYAASNIQVLEGLEAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQH 92
Cdd:COG0187 4 SNYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVDIH 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 93 PAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGVPEDPVRRVrpmEAG 172
Cdd:COG0187 84 PKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKI---GKT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 173 EETGTRIRFWPDGDIFKTTEFRFETLSDRLRELAFLNAGVRIRVEDHREEDEglARETYHSEEGIIGFVDYLDEARDSIL 252
Cdd:COG0187 161 DRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEP--KEETFHYEGGIKDFVEYLNEDKEPLH 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 253 DETIYIAETDGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKFDLSGDDFRE 332
Cdd:COG0187 239 PEVIYFEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 333 GLTAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKARELVQRKDA 412
Cdd:COG0187 319 GLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVRRKSA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 413 FSGGSLPGKLADCSSRDPEEGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTG 492
Cdd:COG0187 399 LESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 493 ltsTEEEFNMNEMRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQEIYCWSDEEMQTR 572
Cdd:COG0187 479 ---IGDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSDAELDEL 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 573 MAELRADGNsPSMQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDAAAADRLFSTLMGDSVEPRREFIERNAKYAT-ID 651
Cdd:COG0187 556 LKELKGKKK-VEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKFVRnLD 634
|
.
gi 2018945971 652 A 652
Cdd:COG0187 635 I 635
|
|
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
13-648 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 1036.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 13 SDYAASNIQVLEGLEAVRKRPSMYIGDVG-LRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQ 91
Cdd:PRK14939 5 NSYGASSIKVLKGLDAVRKRPGMYIGDTDdGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDI 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 92 HPAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGVPEDPVRRVrpmEA 171
Cdd:PRK14939 85 HPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVV---GE 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 172 GEETGTRIRFWPDGDIFKTTEFRFETLSDRLRELAFLNAGVRIRVEDHREEDEglarETYHSEEGIIGFVDYLDEARDSI 251
Cdd:PRK14939 162 TDKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKE----EEFHYEGGIKAFVEYLNRNKTPL 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 252 LDETIYIAETDGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKFDLSGDDFR 331
Cdd:PRK14939 238 HPNIFYFSGEKDGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAR 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 332 EGLTAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKARELVQRKD 411
Cdd:PRK14939 318 EGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 412 AFSGGSLPGKLADCSSRDPEEGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGT 491
Cdd:PRK14939 398 ALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGC 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 492 GLTSteEEFNMNEMRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQEIYCWSDEEMQT 571
Cdd:PRK14939 478 GIGR--DEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDD 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 572 RM-------AELRADG---------------------------------------------------------------N 581
Cdd:PRK14939 556 YLielalegATLHLADgpaisgealeklvkeyravrkiidrlerrypravlealiyapaldlddladeaavaaldadflT 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 582 SP-------------------------------------------------SMQRYKGLGEMNPEQLWTTTMNPETRKIQ 612
Cdd:PRK14939 636 SAeyrrlvelaeklrglieegaylergerkqpvssfeealdwllaearkglSIQRYKGLGEMNPEQLWETTMDPENRRLL 715
|
730 740 750
....*....|....*....|....*....|....*.
gi 2018945971 613 QVTIQDAAAADRLFSTLMGDSVEPRREFIERNAKYA 648
Cdd:PRK14939 716 QVTIEDAIAADEIFTTLMGDEVEPRREFIEENALNV 751
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
15-649 |
0e+00 |
|
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273421 [Multi-domain] Cd Length: 654 Bit Score: 979.53 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 15 YAASNIQVLEGLEAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQHPA 94
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 95 EDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGVPEDPVRRVRPmeaGEE 174
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGE---TKK 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 175 TGTRIRFWPDGDIFKTTEFRFETLSDRLRELAFLNAGVRIRVEDHReeDEGLARETYHSEEGIIGFVDYLDEARDSILDE 254
Cdd:TIGR01059 158 TGTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDER--DGKGKKVTFHYEGGIKSFVKYLNRNKEPLHEE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 255 TIYIAETDGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKFDLSGDDFREGL 334
Cdd:TIGR01059 236 IIYIKGEKEGIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGL 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 335 TAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKARELVQRKDAFS 414
Cdd:TIGR01059 316 TAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALD 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 415 GGSLPGKLADCSSRDPEEGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLt 494
Cdd:TIGR01059 396 SGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGI- 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 495 stEEEFNMNEMRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQEIYCWSDEEMQTRMA 574
Cdd:TIGR01059 475 --GKDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKEKDLVGE 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 575 ELRADG-----------------------NSPSMQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDAAAADRLFSTLMG 631
Cdd:TIGR01059 553 ALEDLKalyiysdkekeeaktqipvhlgrKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMG 632
|
650
....*....|....*...
gi 2018945971 632 DSVEPRREFIERNAKYAT 649
Cdd:TIGR01059 633 DEVEPRREFIEANALDVK 650
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
10-651 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 928.74 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 10 RAISDYAASNIQVLEGLEAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPV 89
Cdd:PRK05559 3 MMTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 90 DQHPAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGVPEDPVRRVRPm 169
Cdd:PRK05559 83 GIHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGT- 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 170 EAGEETGTRIRFWPDGDIFKTTEFRFETLSDRLRELAFLNAGVRIRVEDHREEdeglarETYHSEEGIIGFVDYLDEARD 249
Cdd:PRK05559 162 AGKRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERER------QTFHYENGLKDYLAELNEGKE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 250 SILDETI-YIAETDGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKfDLSGD 328
Cdd:PRK05559 236 TLPEEFVgSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGK-KLEGE 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 329 DFREGLTAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKArelVQ 408
Cdd:PRK05559 315 DVREGLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKK---VK 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 409 RKDAFSGGSLPGKLADCSSRDPEEGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTA 488
Cdd:PRK05559 392 RKKKTSGPALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVA 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 489 LGTGltsTEEEFNMNEMRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQEIYCWSDEE 568
Cdd:PRK05559 472 IGIG---PGDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDEEE 548
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 569 MQTRMAELRADGNSPSMQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDAAAADRLFSTLMGDSVEPRREFIERNAKYA 648
Cdd:PRK05559 549 KEELLKKLGKKGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENGDFA 628
|
...
gi 2018945971 649 TID 651
Cdd:PRK05559 629 EEE 631
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
44-646 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 830.28 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 44 GLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQHPAEDRSALEVVMTVLHAGGKFDKDSYQVSGG 123
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 124 LHGVGVSVVNALASRFEVTVWRDGSVWEQNY-LCGVPEDPVRRVrpmEAGEETGTRIRFWPDGDIFK-TTEFRFETLSDR 201
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFsNNGKPLSEPKII---GDTKKDGTKVTFKPDLEIFGmTTDDDFELLKRR 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 202 LRELAFLNAGVRIRVEDHREEDEglarETYHSEEGIIGFVDYLDEARDSILDETIYIAETDGEVPVELAMQYNDEYNKNV 281
Cdd:smart00433 158 LRELAFLNKGVKITLNDERSDEE----KTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSENI 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 282 LSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKFdlSGDDFREGLTAVLSVKVSEPQFEGQTKTKLGNSDVQ 361
Cdd:smart00433 234 VSFVNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKNI--KGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVR 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 362 GIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKARELvQRKDAFSGGSLPGKLADCSSRDPEEGELYLVEGD 441
Cdd:smart00433 312 FGVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKAREL-TRKKKLSSISLPGKLADASSAGPKKCELFLVEGD 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 442 SAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLtstEEEFNMNEMRYHKIVMMTDADVDGA 521
Cdd:smart00433 391 SAGGSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGI---GKDFDIEKLRYGKIIIMTDADVDGS 467
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 522 HIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQE---IYCWSDEEMQTRMAELrADGNSPSMQRYKGLGEMNPEQ 598
Cdd:smart00433 468 HIKGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKyvySFYSLDEYEKWLEKTE-GNKSKYEIQRYKGLGEMNADQ 546
|
570 580 590 600
....*....|....*....|....*....|....*....|....*...
gi 2018945971 599 LWTTTMNPETRKIQQVTIQDAAAADRLFSTLMGDSVEPRREFIERNAK 646
Cdd:smart00433 547 LWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| parE_Gpos |
TIGR01058 |
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II ... |
13-651 |
0e+00 |
|
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130130 [Multi-domain] Cd Length: 637 Bit Score: 705.86 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 13 SDYAASNIQVLEGLEAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQH 92
Cdd:TIGR01058 3 SKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGIH 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 93 PAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGvpEDPVRRVRPMEAG 172
Cdd:TIGR01058 83 QDGNISTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENG--GKIVQSLKKIGTT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 173 EETGTRIRFWPDGDIFKTTEFRFETLSDRLRELAFLNAGVRIRVEDHREEDeglaRETYHSEEGIIGFVDYLDEARDsIL 252
Cdd:TIGR01058 161 KKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNK----TTVFFYENGLVDFVDYINETKE-TL 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 253 DETIYIAETDGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKFDLSGDDFRE 332
Cdd:TIGR01058 236 SQVTYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIRE 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 333 GLTAVLSVKVSEP--QFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKARELVQ-- 408
Cdd:TIGR01058 316 GLSAIISVRIPEEliQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKsg 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 409 RKDAFSGGSLPGKLADCSSRDPEEGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTA 488
Cdd:TIGR01058 396 KKPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFC 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 489 LGTGLTSteeEFNMNEMRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQE--IYCWSD 566
Cdd:TIGR01058 476 IGTGIGA---DFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKkvKYAWSD 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 567 EEMQtrmaELRADGNSPSMQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDAAAADRLFSTLMGDSVEPRREFIERNAK 646
Cdd:TIGR01058 553 LELE----SVKKKLKNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANIN 628
|
....*
gi 2018945971 647 YATID 651
Cdd:TIGR01058 629 FSVEE 633
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
13-645 |
0e+00 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 545.63 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 13 SDYAASNIQVLEGLEAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQH 92
Cdd:PTZ00109 98 SEYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVS 177
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 93 PAEDRSALEVVMTVLHAGGKF----------------------------------------DKDSYQVSGGLHGVGVSVV 132
Cdd:PTZ00109 178 EKTGKSGLETVLTVLHSGGKFqdtfpknsrsdksedkndtksskkgksshvkgpkeakekeSSQMYEYSSGLHGVGLSVV 257
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 133 NALASRFEVTVWRDGSVWEQNYLCGVPEDPVRRVRpmEAGEETGTRIRFWPDGD-IFKTT--------------EFRFET 197
Cdd:PTZ00109 258 NALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVFS--CPLKKRGTTIHFLPDYKhIFKTHhqhteteeeegcknGFNLDL 335
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 198 LSDRLRELAFLNAGVRIRVEDHREEDEG--LARETYHSEEGIIGFVDYLDEARDSILDETIYIAET--DGEVPVELAMQY 273
Cdd:PTZ00109 336 IKNRIHELSYLNPGLTFYLVDERIANENnfYPYETIKHEGGTREFLEELIKDKTPLYKDINIISIRgvIKNVNVEVSLSW 415
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 274 NDE-YNKNVLSFVNNINThEGGTHVTGFRRALTRTLKRYAQKNDMLSDLKFDLSGDDFREGLTAVLSVKVSEPQFEGQTK 352
Cdd:PTZ00109 416 SLEsYTALIKSFANNVST-TAGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQTK 494
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 353 TKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKARELVQRKDA-FSGGSLPGKLADCSSRDPE 431
Cdd:PTZ00109 495 TKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNqYYSTILPGKLVDCISDDIE 574
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 432 EGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLD-RILEHDQIQNIVTALGTGLT---------------S 495
Cdd:PTZ00109 575 RNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNkKVFENSEIKLLITSIGLSVNpvtwrqydlshgtkaS 654
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 496 TEEEFNMNE--------------MRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRI------- 554
Cdd:PTZ00109 655 KDESVQNNNstltkkknslfdtpLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRItnnrmkq 734
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 555 -----QNGSQEIYCWSDEEM---------------QTRMAELRA------------------------------------ 578
Cdd:PTZ00109 735 fnvstKNSKKYIYTWSDEELnvlikllnkdysskeTTRSVEEKGnapdldneyedekldnknmrennvdevelktelgtn 814
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 579 ---DGNSPS---------------MQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDAAAADRLFSTLMGDSVEPRREF 640
Cdd:PTZ00109 815 vadTEQTDEldinkaffkfskhyeIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQSRKQF 894
|
....*
gi 2018945971 641 IERNA 645
Cdd:PTZ00109 895 IFENS 899
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
13-642 |
3.42e-176 |
|
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. This protein is active as an alpha(2)beta(2) heterotetramer. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130127 [Multi-domain] Cd Length: 625 Bit Score: 515.24 E-value: 3.42e-176
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 13 SDYAASNIQVLEGLEAVRKRPSMYIGDvglRGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQH 92
Cdd:TIGR01055 2 TNYSAKDIEVLDGLEPVRKRPGMYTDT---TRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIH 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 93 PAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGvpedpvRRVRPMEAG 172
Cdd:TIGR01055 79 PKEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENG------AKVTDLISA 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 173 EE-----TGTRIRFWPDGDIFKTTEFRFETLSDRLRELAFLNAGVRIRVEDHREEDEglARETYHSeegiiGFVDYLDEA 247
Cdd:TIGR01055 153 GTcgkrlTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTK--ALWNYPD-----GLKDYLSEA 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 248 --RDSILDETIYIAETDGE-VPVELAMQYNDEYNKNVL-SFVNNINTHEGGTHVTGFRRALTRTLKRYAQKNDMLSDlKF 323
Cdd:TIGR01055 226 vnGDNTLPPKPFSGNFEGDdEAVEWALLWLPEGGELFMeSYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPR-GV 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 324 DLSGDDFREGLTAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQAAEARAAARKA 403
Cdd:TIGR01055 305 KLTAEDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKRAAKK 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 404 relVQRKDAFSGGSLPGKLADCSSRDPEEGELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQ 483
Cdd:TIGR01055 385 ---VVRKKLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIH 461
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 484 NIVTALGTGLTSTEEEfnmnEMRYHKIVMMTDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALPPLYRIQNGSQEIYC 563
Cdd:TIGR01055 462 DIEVALGIDPDSNDLS----QLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYA 537
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 564 WSDEEMQTRMAELRADGNSPSMQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDA--AAADRLFSTLMGDSV-EPRREF 640
Cdd:TIGR01055 538 LDEEEKEKLLYKLKKKKGKPNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVqdQRVDKIMDMLLAKKRsEDRFNW 617
|
..
gi 2018945971 641 IE 642
Cdd:TIGR01055 618 LQ 619
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
45-224 |
3.99e-103 |
|
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.
Pssm-ID: 340405 [Multi-domain] Cd Length: 180 Bit Score: 311.01 E-value: 3.99e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 45 LHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQHPAEDRSALEVVMTVLHAGGKFDKDSYQVSGGL 124
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 125 HGVGVSVVNALASRFEVTVWRDGSVWEQNYLCGVPEDPVRRVrpmEAGEETGTRIRFWPDGDIFKTTEFRFETLSDRLRE 204
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVI---GETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRE 157
|
170 180
....*....|....*....|
gi 2018945971 205 LAFLNAGVRIRVEDHREEDE 224
Cdd:cd16928 158 LAFLNKGLKIVLEDERTGKE 177
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
236-392 |
5.55e-77 |
|
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a heterodimer composed of two subunits. E. coli DNA gyrase B subunit is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Pssm-ID: 238419 [Multi-domain] Cd Length: 172 Bit Score: 242.85 E-value: 5.55e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 236 GIIGFVDYLDEARDSILDETIYIAETDGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQKN 315
Cdd:cd00822 2 GLKDFVEELNKDKEPLHEEPIYIEGEKDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAKKN 81
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2018945971 316 DMLSDLKFDLSGDDFREGLTAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQ 392
Cdd:cd00822 82 NLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAIL 158
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
434-549 |
5.33e-72 |
|
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173786 [Multi-domain] Cd Length: 114 Bit Score: 227.92 E-value: 5.33e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 434 ELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLtstEEEFNMNEMRYHKIVMM 513
Cdd:cd03366 2 ELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGI---GEDFDLEKLRYHKIIIM 78
|
90 100 110
....*....|....*....|....*....|....*.
gi 2018945971 514 TDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALP 549
Cdd:cd03366 79 TDADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
236-392 |
4.59e-68 |
|
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold. This family is structurally related to PF01119.
Pssm-ID: 425522 [Multi-domain] Cd Length: 173 Bit Score: 219.79 E-value: 4.59e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 236 GIIGFVDYLDEARDSILDETIYIAET--DGEVPVELAMQYNDEYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKRYAQ 313
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIIYFEGEspDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2018945971 314 KNDMLSDLKFDLSGDDFREGLTAVLSVKVSEPQFEGQTKTKLGNSDVQGIVESLINTELGRWLEDHPDQAERIIEKVIQ 392
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKALQ 159
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
434-549 |
2.52e-62 |
|
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173780 [Multi-domain] Cd Length: 115 Bit Score: 202.35 E-value: 2.52e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 434 ELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLtsTEEEFNMNEMRYHKIVMM 513
Cdd:cd01030 2 ELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGI--GKDDFDLDKLRYGKIIIM 79
|
90 100 110
....*....|....*....|....*....|....*.
gi 2018945971 514 TDADVDGAHIRALLLTFFYRQLRPLIEKGNIYIALP 549
Cdd:cd01030 80 TDADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
18-641 |
1.20e-56 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 202.29 E-value: 1.20e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 18 SNIQVLEGLEAVRKRPSMYIGDVG-----------------LRGLHHLVYEVLDNSIDEAMAG---HCDEIGVEIyEDGS 77
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAyeaherflfgkftqveyVPGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTI-KNNQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 78 VSIEDNGRGIPvdQHPAEDRSALEV-----VMTVLHAGGKFDkDSYQVSGGLHGVGVSVVNALASRFeVTVWRDGsvweQ 152
Cdd:PHA02569 81 VTVSDNGRGIP--QAMVTTPEGEEIpgpvaAWTRTKAGSNFD-DTNRVTGGMNGVGSSLTNFFSVLF-IGETCDG----K 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 153 NYLCgvpedpVRRVRPME-------AGEETGTRIRFWPDGDIFKTTEFRFETL---SDRLRELAFLNAGVRIrvedhree 222
Cdd:PHA02569 153 NEVT------VNCSNGAEniswstkPGKGKGTSVTFIPDFSHFEVNGLDQQYLdiiLDRLQTLAVVFPDIKF-------- 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 223 deglareTYHSEEGIIGFVDYLdeardSILDETIYIAETDGevpVELAM-QYNDEYNKnvLSFVNNINTHEGGTHVTGFR 301
Cdd:PHA02569 219 -------TFNGKKVSGKFKKYA-----KQFGDDTIVQENDN---VSIALaPSPDGFRQ--LSFVNGLHTKNGGHHVDCVM 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 302 RALTRTLKRYAQKNdmlsdLKFDLSGDDFREGLTAVLSVK-VSEPQFEGQTKTKLGNSdvQGIVESLINTE---LGRWLE 377
Cdd:PHA02569 282 DDICEELIPMIKKK-----HKIEVTKARVKECLTIVLFVRnMSNPRFDSQTKERLTSP--FGEIRNHIDLDykkIAKQIL 354
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 378 DHPDQAERIIEKVIQAAEARAAARKARELVQRKDA----FSGGSLPGKLAdcssrdpeEGELYLVEGDSAGGSAKQARDR 453
Cdd:PHA02569 355 KTEAIIMPIIEAALARKLAAEKAAETKAAKKAKKAkvakHIKANLIGKDA--------ETTLFLTEGDSAIGYLIEVRDE 426
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 454 HFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLTSTEEefnmnEMRYHKIVMMTDADVDG-AHIRALLLTFFY 532
Cdd:PHA02569 427 ELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLGEKAE-----NMNYKNIAIMTDADVDGkGSIYPLLLAFFS 501
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 533 RQLRpLIEKGNIYIALPPLYRIQNGSQEIYCWSDEEmqtrMAELRADGNSPSMQRYKGLGEMNPEQLWTTTMNPetrKIQ 612
Cdd:PHA02569 502 RWPE-LFEQGRIRFVKTPVIIAQVGKETKWFYSLDE----FEKAKDSLKKWSIRYIKGLGSLRKSEYRRVINNP---VYD 573
|
650 660
....*....|....*....|....*....
gi 2018945971 613 QVTIQDaaAADRLFSTLMGDSVEPRREFI 641
Cdd:PHA02569 574 VVVLPD--DWKELFEMLFGDDADLRKDWM 600
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
17-531 |
5.02e-41 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 160.98 E-value: 5.02e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 17 ASNIQVLEGLEAVRKRPSMYIGDVGLR-----------------------GLHHLVYEVL----DNSIDEAMAGHCDEIG 69
Cdd:PTZ00108 7 EERYQKKTQIEHILLRPDTYIGSIETQtedmwvydeeknrmvyktityvpGLYKIFDEILvnaaDNKARDKGGHRMTYIK 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 70 VEIYED-GSVSIEDNGRGIPVDQHPAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVwRDGS 148
Cdd:PTZ00108 87 VTIDEEnGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVEC-VDSK 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 149 -------VWEQNYLcgVPEDPvrRVRPMEaGEETGTRIRFWPDGDIFKTTEFRFETLS---DRLRELAFLNAGVRIRVED 218
Cdd:PTZ00108 166 sgkkfkmTWTDNMS--KKSEP--RITSYD-GKKDYTKVTFYPDYAKFGMTEFDDDMLRllkKRVYDLAGCFGKLKVYLNG 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 219 hreedeglaretyhSEEGIIGFVDYLDEARDSILDETIYIAETDGEVP---VELAMQYNDEYNKNVlSFVNNINTHEGGT 295
Cdd:PTZ00108 241 --------------ERIAIKSFKDYVDLYLPDGEEGKKPPYPFVYTSVngrWEVVVSLSDGQFQQV-SFVNSICTTKGGT 305
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 296 HVTGFRRALTRTLKRYAQKndmLSDLKFDLSGDDFREGLTAVLSVKVSEPQFEGQTK-------TKLGNSDVqgIVESLI 368
Cdd:PTZ00108 306 HVNYILDQLISKLQEKAKK---KKKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKetlttkpSKFGSTCE--LSEKLI 380
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 369 NTELGrwledhpdqaERIIEKVIQAAEARAAARKAREL-VQRKDAFSGgsLPgKLADCSS---RDPEEGELYLVEGDSA- 443
Cdd:PTZ00108 381 KYVLK----------SPILENIVEWAQAKLAAELNKKMkAGKKSRILG--IP-KLDDANDaggKNSEECTLILTEGDSAk 447
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 444 -----GGSAKQaRDRHfqAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLTSTEEefNMNEMRYHKIVMMTDADV 518
Cdd:PTZ00108 448 alalaGLSVVG-RDYY--GVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYE--DPKGLRYGSLMIMTDQDH 522
|
570
....*....|...
gi 2018945971 519 DGAHIRALLLTFF 531
Cdd:PTZ00108 523 DGSHIKGLLINMI 535
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
26-652 |
8.81e-38 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 151.01 E-value: 8.81e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 26 LEAVRKRPSMYIGDVG---------------------LRGLHHLVYEVLDNSIDEAMAG-HCDEIGVEI-YEDGSVSIED 82
Cdd:PLN03128 13 LEHILLRPDTYIGSTEkhtqtlwvyeggemvnrevtyVPGLYKIFDEILVNAADNKQRDpSMDSLKVDIdVEQNTISVYN 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 83 NGRGIPVDQHPAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEV-TVwrDGS-------VWEQN- 153
Cdd:PLN03128 93 NGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVeTA--DGNrgkkykqVFTNNm 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 154 YLCGVPEdpvrrVRPMEAgEETGTRIRFWPDGDIFKTTEFRFET---LSDRLRELA-FLNAGVRIRVEDHREEdeglare 229
Cdd:PLN03128 171 SVKSEPK-----ITSCKA-SENWTKITFKPDLAKFNMTRLDEDVvalMSKRVYDIAgCLGKKLKVELNGKKLP------- 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 230 tyhseegIIGFVDYLDEARDSILDET----IYIAETDG-EVPVELAmqyNDEYNKnvLSFVNNINTHEGGTHVTGFRRAL 304
Cdd:PLN03128 238 -------VKSFQDYVGLYLGPNSREDplprIYEKVNDRwEVCVSLS---DGSFQQ--VSFVNSIATIKGGTHVDYVADQI 305
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 305 TRTLKRYAQ-KNDMLSDLKfdlsGDDFREGLTAVLSVKVSEPQFEGQTKTKLGN------SDVQ------------GIVE 365
Cdd:PLN03128 306 VKHIQEKVKkKNKNATHVK----PFQIKNHLWVFVNCLIENPTFDSQTKETLTTrpssfgSKCElseeflkkvekcGVVE 381
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 366 SLIntelgRWlEDHPDQAEriiekviqaaearaaarkarelVQRKDAFSGGSLPG--KLADCS---SRDPEEGELYLVEG 440
Cdd:PLN03128 382 NIL-----SW-AQFKQQKE----------------------LKKKDGAKRQRLTGipKLDDANdagGKKSKDCTLILTEG 433
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 441 DSAGG---SAKQARDRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLTSTEEEFNMNEMRYHKIVMMTDAD 517
Cdd:PLN03128 434 DSAKAlamSGLSVVGRDHYGVFPLRGKLLNVREASHKQIMKNAEITNIKQILGLQFGKTYDEENTKSLRYGHLMIMTDQD 513
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 518 VDGAHIRALLLTFFYRQLRPLIE-KGNIYIALPPLYRIQNGSQEIYCWSDEEMQTRMAELRADGNSPSMQRYKGLGEMNP 596
Cdd:PLN03128 514 HDGSHIKGLIINFFHSFWPSLLKiPGFLVEFITPIVKATKGGKSLSFYTMPEYEAWKESLEGETKGWTIKYYKGLGTSTS 593
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|....*...
gi 2018945971 597 E--QLWTTTMNPETRKIQQVTIQDAAAADRLFSTlmgDSVEPRREFIERNAKYATIDA 652
Cdd:PLN03128 594 EeaKEYFSNLDIHKKEFLWQSDEDGDLIDMAFSK---KRVEDRKIWLNNYEPGTFLDQ 648
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
580-642 |
1.82e-37 |
|
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA topoisomerase II are similar, but they have a different carboxyl terminus. The amino-terminal portion of the DNA gyrase B protein is thought to catalyze the ATP-dependent super-coiling of DNA. See pfam00204. The carboxyl-terminal end supports the complexation with the DNA gyrase A protein and the ATP-independent relaxation. This family also contains Topoisomerase IV. This is a bacterial enzyme that is closely related to DNA gyrase,.
Pssm-ID: 460016 [Multi-domain] Cd Length: 63 Bit Score: 133.27 E-value: 1.82e-37
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2018945971 580 GNSPSMQRYKGLGEMNPEQLWTTTMNPETRKIQQVTIQDAAAADRLFSTLMGDSVEPRREFIE 642
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
26-592 |
1.13e-26 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 116.50 E-value: 1.13e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 26 LEAVRKRPSMYIGDVG---------------------LRGLHHLVYEVLDNSIDEAMAG-HCDEIGVEI-YEDGSVSIED 82
Cdd:PLN03237 38 LEHILLRPDTYIGSIEkhtqtlwvyetdkmvqrsvtyVPGLYKIFDEILVNAADNKQRDpKMDSLRVVIdVEQNLISVYN 117
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 83 NGRGIPVDQHPAEDRSALEVVMTVLHAGGKFDKDSYQVSGGLHGVGVSVVNALASRFEVTVwRDGS-------VWEQNYl 155
Cdd:PLN03237 118 NGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEFVIET-ADGKrqkkykqVFSNNM- 195
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 156 cGVPEDPVrrVRPMEAGEeTGTRIRFWPDGDIFKTTEFRFET---LSDRLRELA---------FLNaGVRIRVEdhreed 223
Cdd:PLN03237 196 -GKKSEPV--ITKCKKSE-NWTKVTFKPDLAKFNMTHLEDDVvalMKKRVVDIAgclgktvkvELN-GKRIPVK------ 264
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 224 eglaretyhseeGIIGFVD-YLDEARDSILDETIYIAETDG---EVPVELAmqyndEYNKNVLSFVNNINTHEGGTHVTG 299
Cdd:PLN03237 265 ------------SFSDYVDlYLESANKSRPENLPRIYEKVNdrwEVCVSLS-----EGQFQQVSFVNSIATIKGGTHVDY 327
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 300 FRRALTRTLKRYAQKNDMLSDLKfdlsGDDFREGLTAVLSVKVSEPQFEGQTKTKLgnsdvqgiveSLINTELGRWLEDH 379
Cdd:PLN03237 328 VTNQIANHVMEAVNKKNKNANIK----AHNVKNHLWVFVNALIDNPAFDSQTKETL----------TLRQSSFGSKCELS 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 380 PDQAERIIEKVIQAAEARAAARKARELVQRKDAFSGGSLPG--KL---ADCSSRDPEEGELYLVEGDSAGGSAKQAR--- 451
Cdd:PLN03237 394 EDFLKKVMKSGIVENLLSWADFKQSKELKKTDGAKTTRVTGipKLedaNEAGGKNSEKCTLILTEGDSAKALAVAGLsvv 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 452 DRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALgtGLTSTEEEFNMNEMRYHKIVMMTDADVDGAHIRALLLTFF 531
Cdd:PLN03237 474 GRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQIL--GLQHGKQYESVKSLRYGHLMIMTDQDHDGSHIKGLLINFI 551
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2018945971 532 YRQLRPLIEKGNIYIAL--PPLYRIQNGSQEIYCWSDEEMQTRMAELRADGNSPSMQRYKGLG 592
Cdd:PLN03237 552 HSFWPSLLKVPSFLVEFitPIVKATRRGKKVLSFYSMPEYEEWKESLGGNATGWSIKYYKGLG 614
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
435-531 |
1.74e-21 |
|
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173785 [Multi-domain] Cd Length: 120 Bit Score: 90.05 E-value: 1.74e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 435 LYLVEGDSAGGSAKQAR---DRHFQAILPLRGKILNVEKARLDRILEHDQIQNIVTALGTGLTSTEEEfNMNEMRYHKIV 511
Cdd:cd03365 3 LILTEGDSAKALAVAGLsvvGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYE-STKSLRYGRLM 81
|
90 100
....*....|....*....|
gi 2018945971 512 MMTDADVDGAHIRALLLTFF 531
Cdd:cd03365 82 IMTDQDHDGSHIKGLLINFI 101
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
240-356 |
4.79e-19 |
|
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch repair (MMR). Cells lacking either hMLH1 or hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families.
Pssm-ID: 238202 [Multi-domain] Cd Length: 107 Bit Score: 82.69 E-value: 4.79e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 240 FVDYLDEA-RDSILDETIYIAETDGEVPVELAMQYND---EYNKNVLSFVNNINTHEGGTHVTGFRRALTRTLKryaqkn 315
Cdd:cd00329 1 LKDRLAEIlGDKVADKLIYVEGESDGFRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN------ 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....
gi 2018945971 316 dmlsdlkfdlsGDDFREGLTAVLSVKV--SEPQFE-GQTKTKLG 356
Cdd:cd00329 75 -----------GDDVRRYPVAVLSLKIppSLVDVNvHPTKEEVR 107
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
43-184 |
5.62e-17 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 76.92 E-value: 5.62e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 43 RGLHHLVYEVLDNSIDEAMAGhcDEIGVEIYEDG---SVSIEDNGRGIPVdqhpaedrsalEVVMTVLHAGGKFDKDSYQ 119
Cdd:smart00387 4 DRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGdhvEITVEDNGPGIPP-----------EDLEKIFEPFFRTDKRSRK 70
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2018945971 120 VSGglHGVGVSVVNALASRFEVTVWRDGSvweqnylcgvpedpvrrvrpmeagEETGTRIRFWPD 184
Cdd:smart00387 71 IGG--TGLGLSIVKKLVELHGGEISVESE------------------------PGGGTTFTITLP 109
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
43-184 |
3.26e-15 |
|
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.
Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 72.02 E-value: 3.26e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 43 RGLHHLVYEVLDNSIDEAMAGHCDEIGVEIYEDGSVSIEDNGRGIPVDQHPaedrsalevvmtvlHAGGKFDkDSYQVSG 122
Cdd:pfam02518 4 LRLRQVLSNLLDNALKHAAKAGEITVTLSEGGELTLTVEDNGIGIPPEDLP--------------RIFEPFS-TADKRGG 68
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2018945971 123 GLHGVGVSVVNALASRFEVTVWRdgsvweqnylcgvpedpvrrvrpmEAGEETGTRIRFWPD 184
Cdd:pfam02518 69 GGTGLGLSIVRKLVELLGGTITV------------------------ESEPGGGTTVTLTLP 106
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
434-547 |
5.26e-15 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 70.85 E-value: 5.26e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 434 ELYLVEGDSAGGSAKQARDRHFQAILPLRGKILNVEKARLDRILEHdqiqnivtalgtgltsteeeFNMNEMRYHKIVMM 513
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKALKA--------------------LKELALKAKEVILA 60
|
90 100 110
....*....|....*....|....*....|....*.
gi 2018945971 514 TDADVDGAHIRALLLTFfyrqlRPLIEK--GNIYIA 547
Cdd:pfam01751 61 TDPDREGEAIALKLLEL-----KELLENagGRVEFS 91
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
44-184 |
9.21e-11 |
|
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the histidine kinase-like ATPase (HATpase) domains of human topoisomerase IIA (TopIIA) and TopIIB, Saccharomyces cerevisae TOP2p, and related proteins. These proteins catalyze the passage of DNA double strands through a transient double-strand break in the presence of ATP.
Pssm-ID: 340407 [Multi-domain] Cd Length: 147 Bit Score: 60.43 E-value: 9.21e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 44 GLHHLVYEVLDNSID-EAMAGHCDEIGVEIY-EDGSVSIEDNGRGIPVDQHPAEDRSALEVVMTVLHAGGKFDKDSYQVS 121
Cdd:cd16930 4 GLYKIFDEILVNAADnKQRDKSMTCIKVTIDpENNEISVWNNGKGIPVVIHKEEKIYVPEMIFGHLLTSSNYDDDEKKVT 83
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 122 GGLHGVGVSVVNALASRFEVTVwRDGS-------VWEQNYlcGVPEDPvrRVRPMEAGEETgTRIRFWPD 184
Cdd:cd16930 84 GGRNGYGAKLCNIFSTEFTVET-ADSEskkkfkqTWTNNM--GKASEP--KITPYEKGKDY-TKVTFKPD 147
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
434-539 |
1.38e-06 |
|
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173773 [Multi-domain] Cd Length: 83 Bit Score: 46.65 E-value: 1.38e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 434 ELYLVEGDSAGGSAKQARDrHFQAILPLRGKILNVEKARLDRILEhdqiqnivtalgtgltsteeefnmnemRYHKIVMM 513
Cdd:cd00188 2 KLIIVEGPSDALALAQAGG-YGGAVVALGGHALNKTRELLKRLLG---------------------------EAKEVIIA 53
|
90 100
....*....|....*....|....*.
gi 2018945971 514 TDADVDGAHIRALLLTFFYRQLRPLI 539
Cdd:cd00188 54 TDADREGEAIALRLLELLKSLGKKVR 79
|
|
| HATPase |
cd00075 |
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ... |
45-144 |
1.84e-06 |
|
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ATPase (HATPase) domains of several ATP-binding proteins such as histidine kinase, DNA gyrase B, topoisomerases, heat shock protein 90 (HSP90), phytochrome-like ATPases and DNA mismatch repair proteins. Domains belonging to this superfamily are also referred to as GHKL (gyrase, heat-shock protein 90, histidine kinase, MutL) ATPase domains.
Pssm-ID: 340391 [Multi-domain] Cd Length: 102 Bit Score: 46.83 E-value: 1.84e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 45 LHHLVYEVLDNSIDEAMAGhcDEIGVEIYEDGS---VSIEDNGRGIPVDQHPaedrsalevvmtvlHAGGKFDKDSYQVS 121
Cdd:cd00075 1 LEQVLSNLLDNALKYSPPG--GTIEISLRQEGDgvvLEVEDNGPGIPEEDLE--------------RIFERFYRGDKSRE 64
|
90 100
....*....|....*....|...
gi 2018945971 122 GGLHGVGVSVVNALASRFEVTVW 144
Cdd:cd00075 65 GGGTGLGLAIVRRIVEAHGGRIT 87
|
|
| HATPase_TopVIB-like |
cd16933 |
Histidine kinase-like ATPase domain of type IIB topoisomerase, Topo VI, subunit B; This family ... |
27-132 |
8.32e-05 |
|
Histidine kinase-like ATPase domain of type IIB topoisomerase, Topo VI, subunit B; This family includes the histidine kinase-like ATPase (HATPase) domain of the B subunit of topoisomerase VI (Topo VIB). Topo VI is a heterotetrameric complex composed of two TopVIA and two TopVIB subunits and is categorized as a type II B DNA topoisomerase. It is found in archaea and also in plants. Type II enzymes cleave both strands of a DNA duplex and pass a second duplex through the resulting break in an ATP-dependent mechanism. DNA cleavage by Topo VI generates two-nucleotide 5'-protruding ends.
Pssm-ID: 340410 [Multi-domain] Cd Length: 203 Bit Score: 44.26 E-value: 8.32e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 27 EAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEA-MAGHCDEIGVEIYEDG----SVSIEDNGRGIPVDQHPaedrsalE 101
Cdd:cd16933 2 EFFRKNKEMLGFDNPIRSLYTTVRELVENSLDATeEAGILPDIKVEIEEIGkdhyKVIVEDNGPGIPEEQIP-------K 74
|
90 100 110
....*....|....*....|....*....|.
gi 2018945971 102 VVMTVLhAGGKFDKDSyqvSGGLHGVGVSVV 132
Cdd:cd16933 75 VFGKVL-YGSKYHNKQ---SRGQQGLGISAA 101
|
|
| top6b |
TIGR01052 |
DNA topoisomerase VI, B subunit; This model describes DNA topoisomerase VI, an archaeal type ... |
43-130 |
8.27e-04 |
|
DNA topoisomerase VI, B subunit; This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase). [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273417 [Multi-domain] Cd Length: 488 Bit Score: 42.50 E-value: 8.27e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 43 RGLHHLVYEVLDNSIDEA-MAGHCDEIGVEIYEDGS----VSIEDNGRGIPVDQHPaedrsalEVVMTVLhAGGKFDKds 117
Cdd:TIGR01052 27 RSLTTVIHELVTNSLDACeEAGILPDIKVEIEKIGKdhykVTVEDNGPGIPEEYIP-------KVFGKML-AGSKFHR-- 96
|
90
....*....|...
gi 2018945971 118 YQVSGGLHGVGVS 130
Cdd:TIGR01052 97 IIQSRGQQGIGIS 109
|
|
| COG1389 |
COG1389 |
DNA topoisomerase VI, subunit B [Replication, recombination and repair]; |
43-130 |
1.18e-03 |
|
DNA topoisomerase VI, subunit B [Replication, recombination and repair];
Pssm-ID: 440999 [Multi-domain] Cd Length: 530 Bit Score: 41.74 E-value: 1.18e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 43 RGLHHLVYEVLDNSIDEamaghCDE------IGVEIYEDGS-----VSIEDNGRGIPVDQHPaedrsalEVVMTVLhAGG 111
Cdd:COG1389 34 RALYTTVKEAVDNSLDA-----CEEagilpdIKVSIERVDGkdiyrVTVEDNGPGIPPEQIP-------KVFGKLL-YGS 100
|
90
....*....|....*....
gi 2018945971 112 KFDKdsYQVSGGLHGVGVS 130
Cdd:COG1389 101 KFHV--LRQSRGQQGIGIS 117
|
|
| PRK14868 |
PRK14868 |
DNA topoisomerase VI subunit B; Provisional |
12-130 |
4.39e-03 |
|
DNA topoisomerase VI subunit B; Provisional
Pssm-ID: 237842 [Multi-domain] Cd Length: 795 Bit Score: 40.17 E-value: 4.39e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2018945971 12 ISDYAASNIQVLEGLEAVRKRPSMYIGDVGLRGLHHLVYEVLDNSIDEA-MAGHCDEIGVEIYEDGS---VSIEDNGRGI 87
Cdd:PRK14868 14 IAEELAESQREISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATeEAGILPDIYVEIEEVGDyyrLVVEDNGPGI 93
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 2018945971 88 PVDQHPAedrsalevVMTVLHAGGKFDKDsyQVSGGLHGVGVS 130
Cdd:PRK14868 94 TKEQIPK--------VFGKLLYGSRFHAR--EQSRGQQGIGIS 126
|
|
| |
