|
Name |
Accession |
Description |
Interval |
E-value |
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
7-644 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1140.53 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 7 NINNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTG 86
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 87 KHA-MGIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGgKPATTLGKVGKA 165
Cdd:COG0187 82 IHPkEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGKT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 166 pkSKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETEHVAFHYENGVQDFVEYLNEDKEILT 245
Cdd:COG0187 161 --DRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEPKEETFHYEGGIKDFVEYLNEDKEPLH 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 246 P-VIYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYRE 324
Cdd:COG0187 239 PeVIYFEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 325 GLSAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRng 404
Cdd:COG0187 319 GLTAVISVKLPEP--QFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVR-- 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 405 RKNKKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYT 484
Cdd:COG0187 395 RKSALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITA 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 485 IGAGAGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKgakeVVEYAWTDG 564
Cdd:COG0187 475 LGTGIGDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGK----KTYYAYSDA 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 565 ELEDLRKKF--GKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIEDNVKFT 642
Cdd:COG0187 551 ELDELLKELkgKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKFV 630
|
..
gi 1020996058 643 LE 644
Cdd:COG0187 631 RN 632
|
|
| parE_Gpos |
TIGR01058 |
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II ... |
9-649 |
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: 1099.14 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 9 NNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKH 88
Cdd:TIGR01058 3 SKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGIH 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 89 AMG-IPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGGKPATTLGKVGKApk 167
Cdd:TIGR01058 83 QDGnISTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKIGTT-- 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 168 SKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETEhvAFHYENGVQDFVEYLNEDKEILTPV 247
Cdd:TIGR01058 161 KKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNKTT--VFFYENGLVDFVDYINETKETLSQV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 248 IYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYREGLS 327
Cdd:TIGR01058 239 TYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREGLS 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 328 AVLSILVPEEHLQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRNGRKN 407
Cdd:TIGR01058 319 AIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGKKP 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 408 KKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGA 487
Cdd:TIGR01058 399 KKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCIGT 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 488 GAGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKGAKevVEYAWTDGELE 567
Cdd:TIGR01058 479 GIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKK--VKYAWSDLELE 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 568 DLRKKFgKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIEDNVKFTLEESG 647
Cdd:TIGR01058 557 SVKKKL-KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFSVEEEL 635
|
..
gi 1020996058 648 VF 649
Cdd:TIGR01058 636 QI 637
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
4-645 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 1056.63 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 4 KKININNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGM 83
Cdd:PRK05559 1 AAMMTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 84 PTGKHAM-GIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEdGGKPATTLGKV 162
Cdd:PRK05559 81 PVGIHPEeGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFE-GGDPVGPLEVV 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 163 GKAPKSKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETehvaFHYENGVQDFVEYLNEDKE 242
Cdd:PRK05559 160 GTAGKRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERERQT----FHYENGLKDYLAELNEGKE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 243 ILTP--VIYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKeKDKNLEGS 320
Cdd:PRK05559 236 TLPEefVGSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKKLEGE 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 321 DYREGLSAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKardd 400
Cdd:PRK05559 315 DVREGLAAVLSVKIPEP--QFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAK---- 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 401 sRNGRKNKKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINT 480
Cdd:PRK05559 389 -KVKRKKKTSGPALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHD 467
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 481 MIYTIGAGAGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKGakevVEYA 560
Cdd:PRK05559 468 IIVAIGIGPGDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKK----KIYA 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 561 WTDGELEDLRKKF---GKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIED 637
Cdd:PRK05559 544 LDEEEKEELLKKLgkkGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEE 623
|
....*...
gi 1020996058 638 NVKFTLEE 645
Cdd:PRK05559 624 NGDFAEEE 631
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
40-640 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 886.52 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 40 GLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKHA-MGIPTVEVIFTVLHAGGKFGQGGYKTSGG 118
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPkEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 119 LHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGGKPATTLGKVGkaPKSKSGTKVTFMPDAGIFS-TTNFVYNTIAERL 197
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIG--DTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRL 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 198 NESAFLLKNVTLTLTDERSEEteHVAFHYENGVQDFVEYLNEDKEILTPVIYF-EGEEADFQVEVALQYNDGFSDNILSF 276
Cdd:smart00433 159 RELAFLNKGVKITLNDERSDE--EKTFLFEGGIKDYVELLNKNKELLSPEPTYiEGEKDNIRVEVAFQYTDGYSENIVSF 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 277 VNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKdkNLEGSDYREGLSAVLSILVPEEhlQFEGQTKDKLGSPLARP 356
Cdd:smart00433 237 VNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFISVKIPEP--QFEGQTKEKLGTSEVRF 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 357 IVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRngrKNKKDKGLLSGKLTPAQSKNPKKNELYLVEG 436
Cdd:smart00433 313 GVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTR---KKKLSSISLPGKLADASSAGPKKCELFLVEG 389
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 437 DSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGAGAGPDFKVDDSNYDKIIIMTDADTDGAHI 516
Cdd:smart00433 390 DSAGGSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDIEKLRYGKIIIMTDADVDGSHI 469
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 517 QTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKGaKEVVEYAWTDGELEDLRKKFGK--GAMLQRYKGLGEMNADQLW 594
Cdd:smart00433 470 KGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKK-KYVYSFYSLDEYEKWLEKTEGNksKYEIQRYKGLGEMNADQLW 548
|
570 580 590 600
....*....|....*....|....*....|....*....|....*.
gi 1020996058 595 ETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIEDNVK 640
Cdd:smart00433 549 ETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
41-221 |
3.46e-94 |
|
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: 287.90 E-value: 3.46e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 41 LHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKH-AMGIPTVEVIFTVLHAGGKFGQGGYKTSGGL 119
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHpKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 120 HGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGGkPATTLGKVGKapKSKSGTKVTFMPDAGIFSTTNFVYNTIAERLNE 199
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGG-PLTPLEVIGE--TKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRE 157
|
170 180
....*....|....*....|..
gi 1020996058 200 SAFLLKNVTLTLTDERSEETEH 221
Cdd:cd16928 158 LAFLNKGLKIVLEDERTGKEEV 179
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
229-399 |
1.92e-70 |
|
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: 225.96 E-value: 1.92e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 229 GVQDFVEYLNEDKEIL-TPVIYFEGEEADF--QVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYAR 305
Cdd:pfam00204 1 GLKDFVEELNKDKKPLhKEIIYFEGESPDNriEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 306 KTGLLKEKDKNLEGSDYREGLSAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAI 385
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDP--QFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....
gi 1020996058 386 KAREAREAARKARD 399
Cdd:pfam00204 159 QAAKARLAARKARE 172
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
7-644 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1140.53 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 7 NINNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTG 86
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVD 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 87 KHA-MGIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGgKPATTLGKVGKA 165
Cdd:COG0187 82 IHPkEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGKT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 166 pkSKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETEHVAFHYENGVQDFVEYLNEDKEILT 245
Cdd:COG0187 161 --DRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEPKEETFHYEGGIKDFVEYLNEDKEPLH 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 246 P-VIYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYRE 324
Cdd:COG0187 239 PeVIYFEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 325 GLSAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRng 404
Cdd:COG0187 319 GLTAVISVKLPEP--QFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVR-- 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 405 RKNKKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYT 484
Cdd:COG0187 395 RKSALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITA 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 485 IGAGAGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKgakeVVEYAWTDG 564
Cdd:COG0187 475 LGTGIGDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGK----KTYYAYSDA 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 565 ELEDLRKKF--GKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIEDNVKFT 642
Cdd:COG0187 551 ELDELLKELkgKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKFV 630
|
..
gi 1020996058 643 LE 644
Cdd:COG0187 631 RN 632
|
|
| parE_Gpos |
TIGR01058 |
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II ... |
9-649 |
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: 1099.14 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 9 NNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKH 88
Cdd:TIGR01058 3 SKYNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTGIH 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 89 AMG-IPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGGKPATTLGKVGKApk 167
Cdd:TIGR01058 83 QDGnISTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKKIGTT-- 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 168 SKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETEhvAFHYENGVQDFVEYLNEDKEILTPV 247
Cdd:TIGR01058 161 KKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNKTT--VFFYENGLVDFVDYINETKETLSQV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 248 IYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYREGLS 327
Cdd:TIGR01058 239 TYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREGLS 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 328 AVLSILVPEEHLQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRNGRKN 407
Cdd:TIGR01058 319 AIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGKKP 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 408 KKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGA 487
Cdd:TIGR01058 399 KKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCIGT 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 488 GAGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKGAKevVEYAWTDGELE 567
Cdd:TIGR01058 479 GIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKK--VKYAWSDLELE 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 568 DLRKKFgKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIEDNVKFTLEESG 647
Cdd:TIGR01058 557 SVKKKL-KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFSVEEEL 635
|
..
gi 1020996058 648 VF 649
Cdd:TIGR01058 636 QI 637
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
4-645 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 1056.63 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 4 KKININNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGM 83
Cdd:PRK05559 1 AAMMTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 84 PTGKHAM-GIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEdGGKPATTLGKV 162
Cdd:PRK05559 81 PVGIHPEeGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFE-GGDPVGPLEVV 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 163 GKAPKSKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETehvaFHYENGVQDFVEYLNEDKE 242
Cdd:PRK05559 160 GTAGKRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERERQT----FHYENGLKDYLAELNEGKE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 243 ILTP--VIYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKeKDKNLEGS 320
Cdd:PRK05559 236 TLPEefVGSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKKLEGE 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 321 DYREGLSAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKardd 400
Cdd:PRK05559 315 DVREGLAAVLSVKIPEP--QFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAK---- 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 401 sRNGRKNKKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINT 480
Cdd:PRK05559 389 -KVKRKKKTSGPALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHD 467
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 481 MIYTIGAGAGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKGakevVEYA 560
Cdd:PRK05559 468 IIVAIGIGPGDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKK----KIYA 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 561 WTDGELEDLRKKF---GKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIED 637
Cdd:PRK05559 544 LDEEEKEELLKKLgkkGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEE 623
|
....*...
gi 1020996058 638 NVKFTLEE 645
Cdd:PRK05559 624 NGDFAEEE 631
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
9-641 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1045.06 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 9 NNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKH 88
Cdd:PRK05644 6 QEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIH 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 89 A-MGIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGgKPATTLGKVGkaPK 167
Cdd:PRK05644 86 PkTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG-VPVTPLEVIG--ET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 168 SKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETEHVAFHYENGVQDFVEYLNEDKEILTP- 246
Cdd:PRK05644 163 DETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGEEKEETFHYEGGIKEYVEYLNRNKEPLHEe 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 247 VIYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYREGL 326
Cdd:PRK05644 243 PIYFEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGL 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 327 SAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRngRK 406
Cdd:PRK05644 323 TAVISVKHPEP--QFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTR--RK 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 407 NKKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIG 486
Cdd:PRK05644 399 SALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 487 AGAGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKgakevVEYAWTDGEL 566
Cdd:PRK05644 479 TGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGG-----KEYAYSDEEL 553
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1020996058 567 EDLRKKFG----KGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIEDNVKF 641
Cdd:PRK05644 554 DEILAELKlkgnPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAKY 632
|
|
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
9-638 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 919.10 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 9 NNYNDDAIQVLEGLDAVRKRPGMYIGST-DGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGK 87
Cdd:PRK14939 5 NSYGASSIKVLKGLDAVRKRPGMYIGDTdDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDI 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 88 HA-MGIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGgKPATTLGKVGKAp 166
Cdd:PRK14939 85 HPeEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHG-VPVAPLKVVGET- 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 167 kSKSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETEHvaFHYENGVQDFVEYLNEDKEILTP 246
Cdd:PRK14939 163 -DKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEE--FHYEGGIKAFVEYLNRNKTPLHP 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 247 -VIYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYREG 325
Cdd:PRK14939 240 nIFYFSGEKDGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 326 LSAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRngR 405
Cdd:PRK14939 320 LTAVLSVKVPDP--KFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTR--R 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 406 KNKKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTI 485
Cdd:PRK14939 396 KGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITAL 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 486 GAGAGPD-FKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGK------------- 551
Cdd:PRK14939 476 GCGIGRDeFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKqeqylkddealdd 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 552 --------GA-------------------------------------KEVVEYAWTDGEL-------------------- 566
Cdd:PRK14939 556 ylielaleGAtlhladgpaisgealeklvkeyravrkiidrlerrypRAVLEALIYAPALdlddladeaavaaldadflt 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 567 -----------EDLRKKFG-----------------------------KGAMLQRYKGLGEMNADQLWETTMNPENRTLI 606
Cdd:PRK14939 636 saeyrrlvelaEKLRGLIEegaylergerkqpvssfeealdwllaearKGLSIQRYKGLGEMNPEQLWETTMDPENRRLL 715
|
730 740 750
....*....|....*....|....*....|..
gi 1020996058 607 RVTIEDLARAERRVNVLMGDKVPPRRKWIEDN 638
Cdd:PRK14939 716 QVTIEDAIAADEIFTTLMGDEVEPRREFIEEN 747
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
11-640 |
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: 900.18 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 11 YNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKHA- 89
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPe 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 90 MGIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGgKPATTLGKVGKApkSK 169
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERG-IPVGPLEVVGET--KK 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 170 SGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDERSEETEHVAFHYENGVQDFVEYLNEDKEIL-TPVI 248
Cdd:TIGR01059 158 TGTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKGKKVTFHYEGGIKSFVKYLNRNKEPLhEEII 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 249 YFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYREGLSA 328
Cdd:TIGR01059 238 YIKGEKEGIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTA 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 329 VLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRngRKNK 408
Cdd:TIGR01059 318 VISVKVPDP--QFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTR--RKSA 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 409 KDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGAG 488
Cdd:TIGR01059 394 LDSGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCG 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 489 AGPDFKVDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKG--------AKEVVE-- 558
Cdd:TIGR01059 474 IGKDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKeryikddkEKDLVGea 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 559 -------YAWTDGELEDLRKKFG-----KGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGD 626
Cdd:TIGR01059 554 ledlkalYIYSDKEKEEAKTQIPvhlgrKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGD 633
|
650
....*....|....
gi 1020996058 627 KVPPRRKWIEDNVK 640
Cdd:TIGR01059 634 EVEPRREFIEANAL 647
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
40-640 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 886.52 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 40 GLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKHA-MGIPTVEVIFTVLHAGGKFGQGGYKTSGG 118
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPkEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 119 LHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGGKPATTLGKVGkaPKSKSGTKVTFMPDAGIFS-TTNFVYNTIAERL 197
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIG--DTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRL 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 198 NESAFLLKNVTLTLTDERSEEteHVAFHYENGVQDFVEYLNEDKEILTPVIYF-EGEEADFQVEVALQYNDGFSDNILSF 276
Cdd:smart00433 159 RELAFLNKGVKITLNDERSDE--EKTFLFEGGIKDYVELLNKNKELLSPEPTYiEGEKDNIRVEVAFQYTDGYSENIVSF 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 277 VNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKEKdkNLEGSDYREGLSAVLSILVPEEhlQFEGQTKDKLGSPLARP 356
Cdd:smart00433 237 VNNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFISVKIPEP--QFEGQTKEKLGTSEVRF 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 357 IVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRngrKNKKDKGLLSGKLTPAQSKNPKKNELYLVEG 436
Cdd:smart00433 313 GVEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTR---KKKLSSISLPGKLADASSAGPKKCELFLVEG 389
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 437 DSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGAGAGPDFKVDDSNYDKIIIMTDADTDGAHI 516
Cdd:smart00433 390 DSAGGSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDIEKLRYGKIIIMTDADVDGSHI 469
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 517 QTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKGaKEVVEYAWTDGELEDLRKKFGK--GAMLQRYKGLGEMNADQLW 594
Cdd:smart00433 470 KGLLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKK-KYVYSFYSLDEYEKWLEKTEGNksKYEIQRYKGLGEMNADQLW 548
|
570 580 590 600
....*....|....*....|....*....|....*....|....*.
gi 1020996058 595 ETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIEDNVK 640
Cdd:smart00433 549 ETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
10-637 |
1.74e-170 |
|
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: 500.60 E-value: 1.74e-170
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 10 NYNDDAIQVLEGLDAVRKRPGMYigsTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKH- 88
Cdd:TIGR01055 3 NYSAKDIEVLDGLEPVRKRPGMY---TDTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHp 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 89 AMGIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGGKpATTLGKVGKAPKS 168
Cdd:TIGR01055 80 KEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAK-VTDLISAGTCGKR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 169 KSGTKVTFMPDAGIFSTTNFVYNTIAERLNESAFLLKNVTLTLTDErSEETEHVaFHYENGVQDFV-EYLNEDKEILTPV 247
Cdd:TIGR01055 159 LTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDE-VNNTKAL-WNYPDGLKDYLsEAVNGDNTLPPKP 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 248 IYFEGEEADFQVEVALQY-NDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARKTGLLKeKDKNLEGSDYREGL 326
Cdd:TIGR01055 237 FSGNFEGDDEAVEWALLWlPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLP-RGVKLTAEDIWDRC 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 327 SAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAreareAARKARDDSRNGRK 406
Cdd:TIGR01055 316 SYVLSIKMQDP--QFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISS-----AQRRKRAAKKVVRK 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 407 NKKDKGLLSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMiyTIG 486
Cdd:TIGR01055 389 KLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDI--EVA 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 487 AGAGPDfKVDDSN--YDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALPPLYKMSKGKGakevVEYAWTDG 564
Cdd:TIGR01055 467 LGIDPD-SNDLSQlrYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKE----VYYALDEE 541
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 565 E----LEDLRKKFGKgAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDL--ARAERRVNVLMGDKVPP-RRKWIED 637
Cdd:TIGR01055 542 EkeklLYKLKKKKGK-PNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVqdQRVDKIMDMLLAKKRSEdRFNWLQE 620
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
9-638 |
4.06e-161 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 485.54 E-value: 4.06e-161
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 9 NNYNDDAIQVLEGLDAVRKRPGMYIGSTDGTGLHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMP---- 84
Cdd:PTZ00109 98 SEYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPcdvs 177
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 85 --TGKHAMgiptvEVIFTVLHAGGKFGQGG----------------------------------------YKTSGGLHGV 122
Cdd:PTZ00109 178 ekTGKSGL-----ETVLTVLHSGGKFQDTFpknsrsdksedkndtksskkgksshvkgpkeakekessqmYEYSSGLHGV 252
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 123 GSSVVNALSSWLEVEITRDGIVYKQRFEDGG--KPATtlgkVGKAPKSKSGTKVTFMPDA-GIFSTT------------- 186
Cdd:PTZ00109 253 GLSVVNALSSFLKVDVFKGGKIYSIELSKGKvtKPLS----VFSCPLKKRGTTIHFLPDYkHIFKTHhqhteteeeegck 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 187 -NFVYNTIAERLNESAFLLKNVTLTLTDERSEEtEHVAFHYE-----NGVQDFVEYLNEDKEIL---TPVIYFEGEEADF 257
Cdd:PTZ00109 329 nGFNLDLIKNRIHELSYLNPGLTFYLVDERIAN-ENNFYPYEtikheGGTREFLEELIKDKTPLykdINIISIRGVIKNV 407
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 258 QVEVALQYNDG-FSDNILSFVNNVRTKdGGTHETGLKSAITKAMNDYARKTGLLKEKDKNLEGSDYREGLSAVLSILV-- 334
Cdd:PTZ00109 408 NVEVSLSWSLEsYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLng 486
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 335 PEehlqFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIKAREAREAARKARDDSRNgRKNKKDKGLL 414
Cdd:PTZ00109 487 AE----FDGQTKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQ-KNNQYYSTIL 561
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 415 SGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDD-IIKNEEINTMIYTIGAGAGPDF 493
Cdd:PTZ00109 562 PGKLVDCISDDIERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNKkVFENSEIKLLITSIGLSVNPVT 641
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 494 K----------------VDDSN----------------YDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVETGHVYIAL 541
Cdd:PTZ00109 642 WrqydlshgtkaskdesVQNNNstltkkknslfdtplrYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVAC 721
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 542 PPLYKMS---------KGKGAKEVVeYAWTDGEL----------------------------------------EDLRK- 571
Cdd:PTZ00109 722 PPLYRITnnrmkqfnvSTKNSKKYI-YTWSDEELnvlikllnkdysskettrsveekgnapdldneyedekldnKNMREn 800
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 572 -------------------------------KFGKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRV 620
Cdd:PTZ00109 801 nvdevelktelgtnvadteqtdeldinkaffKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELI 880
|
810
....*....|....*...
gi 1020996058 621 NVLMGDKVPPRRKWIEDN 638
Cdd:PTZ00109 881 FLLMGEDVQSRKQFIFEN 898
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
41-221 |
3.46e-94 |
|
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: 287.90 E-value: 3.46e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 41 LHHLVWEIVDNAVDEALSGFGDQIDVIINKDGSITVADHGRGMPTGKH-AMGIPTVEVIFTVLHAGGKFGQGGYKTSGGL 119
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHpKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 120 HGVGSSVVNALSSWLEVEITRDGIVYKQRFEDGGkPATTLGKVGKapKSKSGTKVTFMPDAGIFSTTNFVYNTIAERLNE 199
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGG-PLTPLEVIGE--TKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRE 157
|
170 180
....*....|....*....|..
gi 1020996058 200 SAFLLKNVTLTLTDERSEETEH 221
Cdd:cd16928 158 LAFLNKGLKIVLEDERTGKEEV 179
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
228-399 |
1.38e-78 |
|
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: 247.09 E-value: 1.38e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 228 NGVQDFVEYLNEDKE-ILTPVIYFEGEEADFQVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARK 306
Cdd:cd00822 1 GGLKDFVEELNKDKEpLHEEPIYIEGEKDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 307 TGLLKEKDKNLEGSDYREGLSAVLSILVPEehLQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAIK 386
Cdd:cd00822 81 NNLLKKKDVKLTGDDIREGLTAVISVKVPE--PQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAIL 158
|
170
....*....|...
gi 1020996058 387 AREAREAARKARD 399
Cdd:cd00822 159 AAKAREAARKARE 171
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
229-399 |
1.92e-70 |
|
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: 225.96 E-value: 1.92e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 229 GVQDFVEYLNEDKEIL-TPVIYFEGEEADF--QVEVALQYNDGFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYAR 305
Cdd:pfam00204 1 GLKDFVEELNKDKKPLhKEIIYFEGESPDNriEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 306 KTGLLKEKDKNLEGSDYREGLSAVLSILVPEEhlQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELASNLIRKAI 385
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDP--QFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....
gi 1020996058 386 KAREAREAARKARD 399
Cdd:pfam00204 159 QAAKARLAARKARE 172
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
430-542 |
7.30e-67 |
|
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: 214.06 E-value: 7.30e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 430 ELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGAGAGPDFKVDDSNYDKIIIMTDA 509
Cdd:cd03366 2 ELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIGEDFDLEKLRYHKIIIMTDA 81
|
90 100 110
....*....|....*....|....*....|...
gi 1020996058 510 DTDGAHIQTLLLTFFYRYMRPLVETGHVYIALP 542
Cdd:cd03366 82 DVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
14-635 |
1.45e-59 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 210.00 E-value: 1.45e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 14 DAIQVLEGLDAVRKRPGMYIGSTDGT-----------------GLHHLVWEIVDNAVDEALSG---FGDQIDVIInKDGS 73
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEaherflfgkftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTI-KNNQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 74 ITVADHGRGMPTGK----HAMGIPTVEVIFTVLHAGGKFGQGGYKTsGGLHGVGSSVVNALSSWLeVEITRDGivykQRF 149
Cdd:PHA02569 81 VTVSDNGRGIPQAMvttpEGEEIPGPVAAWTRTKAGSNFDDTNRVT-GGMNGVGSSLTNFFSVLF-IGETCDG----KNE 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 150 -----EDGGKPATTLGKVGKApkskSGTKVTFMPDAGIFSTTNF---VYNTIAERLNESAFLLKNVTLTLTDERseeteh 221
Cdd:PHA02569 155 vtvncSNGAENISWSTKPGKG----KGTSVTFIPDFSHFEVNGLdqqYLDIILDRLQTLAVVFPDIKFTFNGKK------ 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 222 vafhYENGVQDFVEYLNEDKeiltpvIYFEGEEADFQVEVAlqyNDGFSDniLSFVNNVRTKDGGTHetglksaITKAMN 301
Cdd:PHA02569 225 ----VSGKFKKYAKQFGDDT------IVQENDNVSIALAPS---PDGFRQ--LSFVNGLHTKNGGHH-------VDCVMD 282
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 302 D-YARKTGLLKEKDK-NLEGSDYREGLSAVLsILVPEEHLQFEGQTKDKLGSPLA--RPIVDgLVSEQLTYFLMENGELA 377
Cdd:PHA02569 283 DiCEELIPMIKKKHKiEVTKARVKECLTIVL-FVRNMSNPRFDSQTKERLTSPFGeiRNHID-LDYKKIAKQILKTEAII 360
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 378 SNLIRKAIKAREAREAA--RKARDDSRNGRKNKKDKGLLSGKltpaqsknPKKNELYLVEGDSAGGSAKQGRDRKFQAIL 455
Cdd:PHA02569 361 MPIIEAALARKLAAEKAaeTKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHGGY 432
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 456 PLRGKVLNTAKAKMDDIIKNEEintmIYTIGAGAGPDF--KVDDSNYDKIIIMTDADTDG-AHIQTLLLTFFYRYMRpLV 532
Cdd:PHA02569 433 PLRGKVLNTWGMSYADILKNKE----LFDICAITGLVLgeKAENMNYKNIAIMTDADVDGkGSIYPLLLAFFSRWPE-LF 507
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 533 ETGHVYIALPPLYKMSKGKGAKevveYAWTDGELEDLRKKFGKGAMlqRY-KGLGEMNADQLWETTMNPENRTlirVTIE 611
Cdd:PHA02569 508 EQGRIRFVKTPVIIAQVGKETK----WFYSLDEFEKAKDSLKKWSI--RYiKGLGSLRKSEYRRVINNPVYDV---VVLP 578
|
650 660
....*....|....*....|....
gi 1020996058 612 DlaRAERRVNVLMGDKVPPRRKWI 635
Cdd:PHA02569 579 D--DWKELFEMLFGDDADLRKDWM 600
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
430-542 |
1.15e-56 |
|
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: 187.33 E-value: 1.15e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 430 ELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGAGAG-PDFKVDDSNYDKIIIMTD 508
Cdd:cd01030 2 ELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGkDDFDLDKLRYGKIIIMTD 81
|
90 100 110
....*....|....*....|....*....|....
gi 1020996058 509 ADTDGAHIQTLLLTFFYRYMRPLVETGHVYIALP 542
Cdd:cd01030 82 ADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
28-586 |
1.23e-45 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 174.90 E-value: 1.23e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 28 RPGMYIGST-----------DGT----------GLHHLVWEIVDNAVDEALSGFG-DQIDVIINKD-GSITVADHGRGMP 84
Cdd:PLN03128 19 RPDTYIGSTekhtqtlwvyeGGEmvnrevtyvpGLYKIFDEILVNAADNKQRDPSmDSLKVDIDVEqNTISVYNNGKGIP 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 85 T---GKHAMGIPtvEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEI--TRDGIVYKQRFEDGGKPATTl 159
Cdd:PLN03128 99 VeihKEEGVYVP--ELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVETadGNRGKKYKQVFTNNMSVKSE- 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 160 GKVGKAPKSKSGTKVTFMPDAGIFSTTNF---VYNTIAERLNESA-FLLKNVTLTLTDERSEEtehvafhyeNGVQDFVE 235
Cdd:PLN03128 176 PKITSCKASENWTKITFKPDLAKFNMTRLdedVVALMSKRVYDIAgCLGKKLKVELNGKKLPV---------KSFQDYVG 246
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 236 -YLN-EDKEILTPVIYfegEEADFQVEVALQYNDGfSDNILSFVNNVRTKDGGTHETGLKSAITKAMndyarkTGLLKEK 313
Cdd:PLN03128 247 lYLGpNSREDPLPRIY---EKVNDRWEVCVSLSDG-SFQQVSFVNSIATIKGGTHVDYVADQIVKHI------QEKVKKK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 314 DKN---LEGSDYREGLSAVLSILVpeEHLQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGeLASNLIRKAikarea 390
Cdd:PLN03128 317 NKNathVKPFQIKNHLWVFVNCLI--ENPTFDSQTKETLTTRPSSFGSKCELSEEFLKKVEKCG-VVENILSWA------ 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 391 reaARKARDDSRNGRKNKKDKGLLSGKLTPAQ---SKNPKKNELYLVEGDSAGGSAKQGRD---RKFQAILPLRGKVLNT 464
Cdd:PLN03128 388 ---QFKQQKELKKKDGAKRQRLTGIPKLDDANdagGKKSKDCTLILTEGDSAKALAMSGLSvvgRDHYGVFPLRGKLLNV 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 465 AKAKMDDIIKNEEINTMIYTIGAGAGPDFKVDDSN---YDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVET-GHVYIA 540
Cdd:PLN03128 465 REASHKQIMKNAEITNIKQILGLQFGKTYDEENTKslrYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKIpGFLVEF 544
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|
gi 1020996058 541 LPPLYKMSKGKGAK---EVVEY-AWTDGELEDlrkkfGKGAMLQRYKGLG 586
Cdd:PLN03128 545 ITPIVKATKGGKSLsfyTMPEYeAWKESLEGE-----TKGWTIKYYKGLG 589
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
16-636 |
4.75e-41 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 160.98 E-value: 4.75e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 16 IQVLEGLDAVRKRPGMYIGSTDGT-----------------------GLHHLVWEIVDNAVD----EALSGFGDQIDVII 68
Cdd:PTZ00108 10 YQKKTQIEHILLRPDTYIGSIETQtedmwvydeeknrmvyktityvpGLYKIFDEILVNAADnkarDKGGHRMTYIKVTI 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 69 NKD-GSITVADHGRGMPTGKHA-MGIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEI--TRDGIV 144
Cdd:PTZ00108 90 DEEnGEISVYNDGEGIPVQIHKeHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECvdSKSGKK 169
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 145 YKQRFEDGGKPATTlGKVGKAPKSKSGTKVTFMPDAGIFSTTNFVYNTIA---ERLNESAFLLKNVTLTLTDERSeeteh 221
Cdd:PTZ00108 170 FKMTWTDNMSKKSE-PRITSYDGKKDYTKVTFYPDYAKFGMTEFDDDMLRllkKRVYDLAGCFGKLKVYLNGERI----- 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 222 vafhyenGVQDFVEYLN---EDKEILTPVIY-FEGEEADFQVEVALQYNDGfSDNILSFVNNVRTKDGGTHETGLKSAIT 297
Cdd:PTZ00108 244 -------AIKSFKDYVDlylPDGEEGKKPPYpFVYTSVNGRWEVVVSLSDG-QFQQVSFVNSICTTKGGTHVNYILDQLI 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 298 KAMNDYARKtglLKEKDKNLEGSDYREGLSAVLSILVpeEHLQFEGQTKDKLGSPLARPIVDGLVSEQLTYFLMENGELa 377
Cdd:PTZ00108 316 SKLQEKAKK---KKKKGKEIKPNQIKNHLWVFVNCLI--VNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVLKSPIL- 389
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 378 SNLIRKAiKAREAREAARKARddsrngrknKKDKGLLSG--KL---TPAQSKNPKKNELYLVEGDSAGGSAKQG---RDR 449
Cdd:PTZ00108 390 ENIVEWA-QAKLAAELNKKMK---------AGKKSRILGipKLddaNDAGGKNSEECTLILTEGDSAKALALAGlsvVGR 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 450 KFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGAGAGPDFK-VDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYM 528
Cdd:PTZ00108 460 DYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYEdPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHFW 539
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 529 RPLVET-GHVYIALPPLYKMSkgKGAKEVVEYaWTDGELEDLRKKFG-KGAMLQRYKGLGEMNADQLWETTMNPENRTlI 606
Cdd:PTZ00108 540 PSLLKNpGFLKEFITPIVKAT--KKGNQVISF-FTIPDFEKWKQTVGlKGWKIKYYKGLGTSTDKEGKEYFSNIDKHR-I 615
|
650 660 670
....*....|....*....|....*....|
gi 1020996058 607 RVTIEDLARAERRVNVLMGDKVPPRRKWIE 636
Cdd:PTZ00108 616 RFVYVDDSDDDSIDLAFSKKRVEDRKEWIT 645
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
574-636 |
4.31e-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: 132.12 E-value: 4.31e-37
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1020996058 574 GKGAMLQRYKGLGEMNADQLWETTMNPENRTLIRVTIEDLARAERRVNVLMGDKVPPRRKWIE 636
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
28-586 |
6.83e-32 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 132.68 E-value: 6.83e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 28 RPGMYIGSTDGT---------------------GLHHLVWEIVDNAVDEALSGFG-DQIDVIINKD-GSITVADHGRGMP 84
Cdd:PLN03237 44 RPDTYIGSIEKHtqtlwvyetdkmvqrsvtyvpGLYKIFDEILVNAADNKQRDPKmDSLRVVIDVEqNLISVYNNGDGVP 123
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 85 TGKHAM-GIPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGSSVVNALSSWLEVEiTRDGI---VYKQRFEDG-GKPATTL 159
Cdd:PLN03237 124 VEIHQEeGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEFVIE-TADGKrqkKYKQVFSNNmGKKSEPV 202
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 160 gkVGKAPKSKSGTKVTFMPDAGIFSTTNFVYNTIA---ERLNESAFLL-KNVTLTLTDERSEetehvafhyENGVQDFVE 235
Cdd:PLN03237 203 --ITKCKKSENWTKVTFKPDLAKFNMTHLEDDVVAlmkKRVVDIAGCLgKTVKVELNGKRIP---------VKSFSDYVD 271
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 236 -YL---NEDKEILTPVIYfegEEADFQVEVALQYNDGFSDNIlSFVNNVRTKDGGTHETGLKSAITKAMNDYARKtgllK 311
Cdd:PLN03237 272 lYLesaNKSRPENLPRIY---EKVNDRWEVCVSLSEGQFQQV-SFVNSIATIKGGTHVDYVTNQIANHVMEAVNK----K 343
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 312 EKDKNLEGSDYREGLSAVLSILVpeEHLQFEGQTKDKLGSplaRPIVDGLVSEQLTYFL--MENGELASNLIRKAiKARE 389
Cdd:PLN03237 344 NKNANIKAHNVKNHLWVFVNALI--DNPAFDSQTKETLTL---RQSSFGSKCELSEDFLkkVMKSGIVENLLSWA-DFKQ 417
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 390 AREAarKARDDSRNGRKNKKDKgllSGKLTPAQSKNPKKNELYLVEGDSAGGSAKQGR---DRKFQAILPLRGKVLNTAK 466
Cdd:PLN03237 418 SKEL--KKTDGAKTTRVTGIPK---LEDANEAGGKNSEKCTLILTEGDSAKALAVAGLsvvGRNYYGVFPLRGKLLNVRE 492
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 467 AKMDDIIKNEEINTMIYTIGAGAGPDFK-VDDSNYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVET-GHVYIALPPL 544
Cdd:PLN03237 493 ASHKQIMNNAEIENIKQILGLQHGKQYEsVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSFWPSLLKVpSFLVEFITPI 572
|
570 580 590 600
....*....|....*....|....*....|....*....|....*
gi 1020996058 545 YKMSKGKGAKEVVeyaWTDGELEDLRKKFGKGAM---LQRYKGLG 586
Cdd:PLN03237 573 VKATRRGKKVLSF---YSMPEYEEWKESLGGNATgwsIKYYKGLG 614
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
230-350 |
1.00e-23 |
|
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: 96.18 E-value: 1.00e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 230 VQDFVEYLNEDKeILTPVIYFEGEEADFQVEVALQYND---GFSDNILSFVNNVRTKDGGTHETGLKSAITKAMNdyark 306
Cdd:cd00329 1 LKDRLAEILGDK-VADKLIYVEGESDGFRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN----- 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 1020996058 307 tgllkekdknleGSDYREGLSAVLSILVPEEHLQFE-GQTKDKLG 350
Cdd:cd00329 75 ------------GDDVRRYPVAVLSLKIPPSLVDVNvHPTKEEVR 107
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
431-527 |
9.81e-18 |
|
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: 79.27 E-value: 9.81e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 431 LYLVEGDSAGGSAKQGR---DRKFQAILPLRGKVLNTAKAKMDDIIKNEEINTMIYTIGAGAGPDFKVDDSN--YDKIII 505
Cdd:cd03365 3 LILTEGDSAKALAVAGLsvvGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYESTKSlrYGRLMI 82
|
90 100
....*....|....*....|..
gi 1020996058 506 MTDADTDGAHIQTLLLTFFYRY 527
Cdd:cd03365 83 MTDQDHDGSHIKGLLINFIHSF 104
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
430-540 |
8.31e-16 |
|
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: 73.16 E-value: 8.31e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 430 ELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNTAKAKMDDIIKNeeintmiytigagagpdFKVDDSNYDKIIIMTDA 509
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKALKA-----------------LKELALKAKEVILATDP 63
|
90 100 110
....*....|....*....|....*....|.
gi 1020996058 510 DTDGAHIQTLLLTfFYRYMRPLVetGHVYIA 540
Cdd:pfam01751 64 DREGEAIALKLLE-LKELLENAG--GRVEFS 91
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
36-142 |
9.36e-16 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 73.45 E-value: 9.36e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 36 TDGTGLHHLVWEIVDNAVDEALSgfGDQIDVIINKDG---SITVADHGRGMPtgkhamgiptVEVIFTVLHAGGKFGQGG 112
Cdd:smart00387 1 GDPDRLRQVLSNLLDNAIKYTPE--GGRITVTLERDGdhvEITVEDNGPGIP----------PEDLEKIFEPFFRTDKRS 68
|
90 100 110
....*....|....*....|....*....|
gi 1020996058 113 YKTSGglHGVGSSVVNALSSWLEVEITRDG 142
Cdd:smart00387 69 RKIGG--TGLGLSIVKKLVELHGGEISVES 96
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
36-141 |
9.65e-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: 70.47 E-value: 9.65e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 36 TDGTGLHHLVWEIVDNAVDEAlsGFGDQIDVIINKDG--SITVADHGRGMPTGKHamgiptvEVIFtvlhagGKFGQGGy 113
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGelTLTVEDNGIGIPPEDL-------PRIF------EPFSTAD- 64
|
90 100
....*....|....*....|....*...
gi 1020996058 114 KTSGGLHGVGSSVVNALSSWLEVEITRD 141
Cdd:pfam02518 65 KRGGGGTGLGLSIVRKLVELLGGTITVE 92
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
40-179 |
4.45e-10 |
|
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: 58.50 E-value: 4.45e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 40 GLHHLVWEIVDNAVD-EALSGFGDQIDVIINKD-GSITVADHGRGMPTGKH-AMGIPTVEVIFTVLHAGGKFGQGGYKTS 116
Cdd:cd16930 4 GLYKIFDEILVNAADnKQRDKSMTCIKVTIDPEnNEISVWNNGKGIPVVIHkEEKIYVPEMIFGHLLTSSNYDDDEKKVT 83
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1020996058 117 GGLHGVGSSVVNALSSWLEVEiTRDGIV---YKQRFEDGGKPATTlGKVGKAPKSKSGTKVTFMPD 179
Cdd:cd16930 84 GGRNGYGAKLCNIFSTEFTVE-TADSESkkkFKQTWTNNMGKASE-PKITPYEKGKDYTKVTFKPD 147
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
429-527 |
1.38e-05 |
|
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: 43.57 E-value: 1.38e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 429 NELYLVEGDSAGGSAKQGRDrKFQAILPLRGKVLNTAKAKMDDIIKNeeintmiytigagagpdfkvddsnYDKIIIMTD 508
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGG-YGGAVVALGGHALNKTRELLKRLLGE------------------------AKEVIIATD 55
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90
....*....|....*....
gi 1020996058 509 ADTDGAHIQTLLLTFFYRY 527
Cdd:cd00188 56 ADREGEAIALRLLELLKSL 74
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| TopoIIA_Trans_ScTopoIIA |
cd03481 |
TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
228-349 |
3.08e-04 |
|
TopoIIA_Trans_ScTopoIIA: 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 Saccharomyces cerevisiae Topo IIA. S. cerevisiae Topo IIA is a homodimer encoded by a single gene. 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. 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.
Pssm-ID: 239563 [Multi-domain] Cd Length: 153 Bit Score: 41.50 E-value: 3.08e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020996058 228 NGVQDFVE-YLNEDKEILTPVIYFEGEEADFQVEVALQYNDGfSDNILSFVNNVRTKDGGTHETGLKSAITKAMNDYARK 306
Cdd:cd03481 1 KSFKDYVKlYLKDANKEDGPPPPVVYEPVNDRWEVAVALSDG-QFQQVSFVNSIATTKGGTHVDYVADQIVKKLDEVVKK 79
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 1020996058 307 tglLKEKDKNLEGSDYREGLSAVLSILVpeEHLQFEGQTKDKL 349
Cdd:cd03481 80 ---KNKGGINVKPFQVKNHLWIFVNCLI--ENPSFDSQTKETL 117
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