|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
1-805 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 1584.34 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 1 MSDNYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPT 80
Cdd:PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 81 ELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDT 160
Cdd:PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 161 DKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREEDKmDHFEYEGGIQAFVEHLNTNKTPIIQKI 240
Cdd:PRK14939 163 DKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKE-EEFHYEGGIKAFVEYLNRNKTPLHPNI 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 241 FHFNSEReDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREGL 320
Cdd:PRK14939 242 FYFSGEK-DGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREGL 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 321 TAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGALD 400
Cdd:PRK14939 321 TAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKGALD 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 401 LAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIG 480
Cdd:PRK14939 401 IAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGCGIG 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 481 RDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDEDAMNQYQVSL 560
Cdd:PRK14939 481 RDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYLIEL 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 561 ALDNAELHVNpEAPAFAGEGLEKLVQQYNAGIKLVDRMSRRYPRALVHELIYVPRLTAEQCHDGAAVEAwgkqlveqlna 640
Cdd:PRK14939 561 ALEGATLHLA-DGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAA----------- 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 641 kevgasqyslevekheelglsvpkivvrthgvthehlLSIDLINSKEFGKLADLSEALDGLIEEGAYIKRGERTQEVSSF 720
Cdd:PRK14939 629 -------------------------------------LDADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPVSSF 671
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 721 VDALNWLVKESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENALKV 800
Cdd:PRK14939 672 EEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENALNV 751
|
....*
gi 857864355 801 ANLDV 805
Cdd:PRK14939 752 ANLDV 756
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
1-805 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1087.37 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 1 MSDNYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPT 80
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 81 ELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDT 160
Cdd:COG0187 81 DIHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 161 DKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREED-KMDHFEYEGGIQAFVEHLNTNKTPIIQK 239
Cdd:COG0187 161 DRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEpKEETFHYEGGIKDFVEYLNEDKEPLHPE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 240 IFHFNSEReDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREG 319
Cdd:COG0187 241 VIYFEGEK-DGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVREG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 320 LTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGAL 399
Cdd:COG0187 320 LTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVRRKSAL 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 400 DLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGI 479
Cdd:COG0187 400 ESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTGI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 480 GrDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDEdamnqyqvs 559
Cdd:COG0187 480 G-DDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSD--------- 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 560 laldnaelhvnpeapafagegleklvqqynagiklvdrmsrrypralvheliyvprltaeqchdgaaveawgkqlveqln 639
Cdd:COG0187 --------------------------------------------------------------------------------
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 640 akevgasqyslevekheelglsvpkivvrthgvthehllsidlinskefgkladlsEALDGLIEEGayikrgertqevss 719
Cdd:COG0187 550 --------------------------------------------------------AELDELLKEL-------------- 559
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 720 fvdalnwlvkESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENALK 799
Cdd:COG0187 560 ----------KGKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKF 629
|
....*.
gi 857864355 800 VANLDV 805
Cdd:COG0187 630 VRNLDI 635
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
5-805 |
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: 1082.38 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 5 YDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELHP 84
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 85 EENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDTDKTG 164
Cdd:TIGR01059 80 EEGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 165 TEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREED-KMDHFEYEGGIQAFVEHLNTNKTPIIQKIFHF 243
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKgKKVTFHYEGGIKSFVKYLNRNKEPLHEEIIYI 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 244 NSEREdGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREGLTAI 323
Cdd:TIGR01059 240 KGEKE-GIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTAV 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 324 VSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGALDLAG 403
Cdd:TIGR01059 319 ISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALDSGG 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 404 LPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDe 483
Cdd:TIGR01059 399 LPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIGKD- 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 484 YNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDEDamnqyqvslald 563
Cdd:TIGR01059 478 FDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDK------------ 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 564 naelhvnpeAPAFAGEGLEKLvqqynagiklvdrmsrrypralvheliyvprltaeqchdgaaveawgkQLVEQLNAKEV 643
Cdd:TIGR01059 546 ---------EKDLVGEALEDL------------------------------------------------KALYIYSDKEK 568
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 644 GASQYSLEvekheelglsvpkivvrthgvthehllsidlinskefgkladlsealdglieegayikrgertqevssfvda 723
Cdd:TIGR01059 569 EEAKTQIP------------------------------------------------------------------------ 576
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 724 lnwlVKESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENALKVANL 803
Cdd:TIGR01059 577 ----VHLGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDVKNL 652
|
..
gi 857864355 804 DV 805
Cdd:TIGR01059 653 DV 654
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
35-797 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 787.90 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 35 GLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGG 114
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 115 LHGVGVSVVNALSKQVTLTIHRGGKIHTQTYS-HGEPQAPLAVIGDTDKTGTEIRFWPSEETFTNI-EFHYDILAKRLRE 192
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGMTtDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 193 LSFLNSGVSIKLIDEReEDKMDHFEYEGGIQAFVEHLNTNKTPIIQKIFHFNSErEDGITVEVAMQWNDGYQENIYCFTN 272
Cdd:smart00433 161 LAFLNKGVKITLNDER-SDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGE-KDNIRVEVAFQYTDGYSENIVSFVN 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 273 NIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKtaTSGDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVES 352
Cdd:smart00433 239 NIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKN--IKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVEK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 353 TMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKgALDLAGLPGKLADCQEKDPALSELYIVEGDSAGGS 432
Cdd:smart00433 317 IVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSSISLPGKLADASSAGPKKCELFLVEGDSAGGS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 433 AKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGrDEYNPDKLRYHNIIIMTDADVDGSHIRTLLL 512
Cdd:smart00433 396 AKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIG-KDFDIEKLRYGKIIIMTDADVDGSHIKGLLL 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 513 TFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDedamnqyqvslaldnaelhvnpeapafagegleklvqqynagi 592
Cdd:smart00433 475 TFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYVYSF------------------------------------------- 511
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 593 klvdrmsrrypralvheliyvprltaeqchdgaaveawgkqlveqlnakevgasqYSLEVEKHEelglsvpkivvrthgv 672
Cdd:smart00433 512 -------------------------------------------------------YSLDEYEKW---------------- 520
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 673 thehllsidlINSKEFGkladlsealdglieegayikrgertqevssfvdalnwlvkesRRGLSLQRYKGLGEMNPDQLW 752
Cdd:smart00433 521 ----------LEKTEGN------------------------------------------KSKYEIQRYKGLGEMNADQLW 548
|
730 740 750 760
....*....|....*....|....*....|....*....|....*
gi 857864355 753 ETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENA 797
Cdd:smart00433 549 ETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENA 593
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
36-210 |
5.40e-107 |
|
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: 325.26 E-value: 5.40e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 36 LHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGL 115
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 116 HGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDTDKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSF 195
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELAF 160
|
170
....*....|....*
gi 857864355 196 LNSGVSIKLIDEREE 210
Cdd:cd16928 161 LNKGLKIVLEDERTG 175
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
221-377 |
6.42e-65 |
|
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: 214.02 E-value: 6.42e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 221 GIQAFVEHLNTNKTPIIQKIFHFNSE-REDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMD 299
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIIYFEGEsPDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 857864355 300 KEGFSKKAKTATSGDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKII 377
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
1-805 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 1584.34 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 1 MSDNYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPT 80
Cdd:PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 81 ELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDT 160
Cdd:PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 161 DKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREEDKmDHFEYEGGIQAFVEHLNTNKTPIIQKI 240
Cdd:PRK14939 163 DKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKE-EEFHYEGGIKAFVEYLNRNKTPLHPNI 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 241 FHFNSEReDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREGL 320
Cdd:PRK14939 242 FYFSGEK-DGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREGL 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 321 TAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGALD 400
Cdd:PRK14939 321 TAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKGALD 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 401 LAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIG 480
Cdd:PRK14939 401 IAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGCGIG 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 481 RDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDEDAMNQYQVSL 560
Cdd:PRK14939 481 RDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYLIEL 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 561 ALDNAELHVNpEAPAFAGEGLEKLVQQYNAGIKLVDRMSRRYPRALVHELIYVPRLTAEQCHDGAAVEAwgkqlveqlna 640
Cdd:PRK14939 561 ALEGATLHLA-DGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAA----------- 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 641 kevgasqyslevekheelglsvpkivvrthgvthehlLSIDLINSKEFGKLADLSEALDGLIEEGAYIKRGERTQEVSSF 720
Cdd:PRK14939 629 -------------------------------------LDADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPVSSF 671
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 721 VDALNWLVKESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENALKV 800
Cdd:PRK14939 672 EEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENALNV 751
|
....*
gi 857864355 801 ANLDV 805
Cdd:PRK14939 752 ANLDV 756
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
1-805 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1087.37 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 1 MSDNYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPT 80
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 81 ELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDT 160
Cdd:COG0187 81 DIHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 161 DKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREED-KMDHFEYEGGIQAFVEHLNTNKTPIIQK 239
Cdd:COG0187 161 DRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEpKEETFHYEGGIKDFVEYLNEDKEPLHPE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 240 IFHFNSEReDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREG 319
Cdd:COG0187 241 VIYFEGEK-DGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVREG 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 320 LTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGAL 399
Cdd:COG0187 320 LTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVRRKSAL 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 400 DLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGI 479
Cdd:COG0187 400 ESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTGI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 480 GrDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDEdamnqyqvs 559
Cdd:COG0187 480 G-DDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSD--------- 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 560 laldnaelhvnpeapafagegleklvqqynagiklvdrmsrrypralvheliyvprltaeqchdgaaveawgkqlveqln 639
Cdd:COG0187 --------------------------------------------------------------------------------
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 640 akevgasqyslevekheelglsvpkivvrthgvthehllsidlinskefgkladlsEALDGLIEEGayikrgertqevss 719
Cdd:COG0187 550 --------------------------------------------------------AELDELLKEL-------------- 559
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 720 fvdalnwlvkESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENALK 799
Cdd:COG0187 560 ----------KGKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKF 629
|
....*.
gi 857864355 800 VANLDV 805
Cdd:COG0187 630 VRNLDI 635
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
5-805 |
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: 1082.38 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 5 YDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELHP 84
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 85 EENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDTDKTG 164
Cdd:TIGR01059 80 EEGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 165 TEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREED-KMDHFEYEGGIQAFVEHLNTNKTPIIQKIFHF 243
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKgKKVTFHYEGGIKSFVKYLNRNKEPLHEEIIYI 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 244 NSEREdGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREGLTAI 323
Cdd:TIGR01059 240 KGEKE-GIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTAV 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 324 VSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGALDLAG 403
Cdd:TIGR01059 319 ISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALDSGG 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 404 LPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDe 483
Cdd:TIGR01059 399 LPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIGKD- 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 484 YNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDEDamnqyqvslald 563
Cdd:TIGR01059 478 FDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDK------------ 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 564 naelhvnpeAPAFAGEGLEKLvqqynagiklvdrmsrrypralvheliyvprltaeqchdgaaveawgkQLVEQLNAKEV 643
Cdd:TIGR01059 546 ---------EKDLVGEALEDL------------------------------------------------KALYIYSDKEK 568
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 644 GASQYSLEvekheelglsvpkivvrthgvthehllsidlinskefgkladlsealdglieegayikrgertqevssfvda 723
Cdd:TIGR01059 569 EEAKTQIP------------------------------------------------------------------------ 576
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 724 lnwlVKESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENALKVANL 803
Cdd:TIGR01059 577 ----VHLGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDVKNL 652
|
..
gi 857864355 804 DV 805
Cdd:TIGR01059 653 DV 654
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
1-805 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1071.64 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 1 MSDNYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPT 80
Cdd:PRK05644 4 KAQEYDASQIQVLEGLEAVRKRPGMYIGSTGE-RGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 81 ELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDT 160
Cdd:PRK05644 83 DIHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVIGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 161 DKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREEDKM-DHFEYEGGIQAFVEHLNTNKTPIIQK 239
Cdd:PRK05644 163 DETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGEEKeETFHYEGGIKEYVEYLNRNKEPLHEE 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 240 IFHFNSEReDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREG 319
Cdd:PRK05644 243 PIYFEGEK-DGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREG 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 320 LTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGAL 399
Cdd:PRK05644 322 LTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRKSAL 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 400 DLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGI 479
Cdd:PRK05644 402 ESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGI 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 480 GrDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEqyikdedamnqyqvs 559
Cdd:PRK05644 482 G-DDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE--------------- 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 560 laldnaelhvnpeapafagegleklvqqynagiklvdrmsrrypralvheliYVprltaeqchdgaaveawgkqlveqln 639
Cdd:PRK05644 546 ----------------------------------------------------YA-------------------------- 547
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 640 akevgasqYSlevekheelglsvpkivvrthgvthehllsidlinskefgkladlSEALDGLIEEGAyikrgertqevss 719
Cdd:PRK05644 548 --------YS---------------------------------------------DEELDEILAELK------------- 561
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 720 fvdalnwlvKESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENALK 799
Cdd:PRK05644 562 ---------LKGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAKY 632
|
....*.
gi 857864355 800 VANLDV 805
Cdd:PRK05644 633 VRNLDI 638
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
1-797 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 856.32 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 1 MSDNYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPT 80
Cdd:PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYIGSTDT-RGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 81 ELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDT 160
Cdd:PRK05559 83 GIHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTA 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 161 --DKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREEDKmdhFEYEGGIQAFVEHLNTNKTPIIQ 238
Cdd:PRK05559 163 gkRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERERQT---FHYENGLKDYLAELNEGKETLPE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 239 KIFHFNSEREDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATsGDDARE 318
Cdd:PRK05559 240 EFVGSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGKKLE-GEDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 319 GLTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREmtRRKGA 398
Cdd:PRK05559 319 GLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKVK--RKKKT 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 399 LDLAgLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCG 478
Cdd:PRK05559 397 SGPA-LPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 479 IGrDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYikdedamnqyqv 558
Cdd:PRK05559 476 PG-DSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIY------------ 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 559 slALDNAElhvnpeapafagegleklvqqynagiklvdrmsrrypralvheliyvprltaeqchdgaaveawgkqlveql 638
Cdd:PRK05559 543 --ALDEEE------------------------------------------------------------------------ 548
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 639 nakevgasqyslevekheelglsvpkivvrthgvthehllsidlinskefgkladlseaLDGLIEEgayikrgertqevs 718
Cdd:PRK05559 549 -----------------------------------------------------------KEELLKK-------------- 555
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 857864355 719 sfvdalnwlVKESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENA 797
Cdd:PRK05559 556 ---------LGKKGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENG 625
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
35-797 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 787.90 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 35 GLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGG 114
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 115 LHGVGVSVVNALSKQVTLTIHRGGKIHTQTYS-HGEPQAPLAVIGDTDKTGTEIRFWPSEETFTNI-EFHYDILAKRLRE 192
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGMTtDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 193 LSFLNSGVSIKLIDEReEDKMDHFEYEGGIQAFVEHLNTNKTPIIQKIFHFNSErEDGITVEVAMQWNDGYQENIYCFTN 272
Cdd:smart00433 161 LAFLNKGVKITLNDER-SDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGE-KDNIRVEVAFQYTDGYSENIVSFVN 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 273 NIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKtaTSGDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVES 352
Cdd:smart00433 239 NIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKN--IKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVEK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 353 TMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKgALDLAGLPGKLADCQEKDPALSELYIVEGDSAGGS 432
Cdd:smart00433 317 IVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSSISLPGKLADASSAGPKKCELFLVEGDSAGGS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 433 AKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGrDEYNPDKLRYHNIIIMTDADVDGSHIRTLLL 512
Cdd:smart00433 396 AKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIG-KDFDIEKLRYGKIIIMTDADVDGSHIKGLLL 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 513 TFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDedamnqyqvslaldnaelhvnpeapafagegleklvqqynagi 592
Cdd:smart00433 475 TFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYVYSF------------------------------------------- 511
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 593 klvdrmsrrypralvheliyvprltaeqchdgaaveawgkqlveqlnakevgasqYSLEVEKHEelglsvpkivvrthgv 672
Cdd:smart00433 512 -------------------------------------------------------YSLDEYEKW---------------- 520
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 673 thehllsidlINSKEFGkladlsealdglieegayikrgertqevssfvdalnwlvkesRRGLSLQRYKGLGEMNPDQLW 752
Cdd:smart00433 521 ----------LEKTEGN------------------------------------------KSKYEIQRYKGLGEMNADQLW 548
|
730 740 750 760
....*....|....*....|....*....|....*....|....*
gi 857864355 753 ETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIEENA 797
Cdd:smart00433 549 ETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENA 593
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
4-797 |
7.76e-177 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 531.76 E-value: 7.76e-177
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 4 NYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELH 83
Cdd:PTZ00109 99 EYDADDIVVLEGLEAVRKRPGMYIGNTDE-KGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVS 177
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 84 PEENVSAAEVIMTVLHAGGKFDD----------------------------------------NSYKVSGGLHGVGVSVV 123
Cdd:PTZ00109 178 EKTGKSGLETVLTVLHSGGKFQDtfpknsrsdksedkndtksskkgksshvkgpkeakekessQMYEYSSGLHGVGLSVV 257
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 124 NALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGD-TDKTGTEIRFWP---------------SEETFTNIEFHYDILA 187
Cdd:PTZ00109 258 NALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVFSCpLKKRGTTIHFLPdykhifkthhqhtetEEEEGCKNGFNLDLIK 337
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 188 KRLRELSFLNSGVSIKLIDEREEDKMDHFEYE-----GGIQAFVEHLNTNKTPIIQKIFHFN-SEREDGITVEVAMQWND 261
Cdd:PTZ00109 338 NRIHELSYLNPGLTFYLVDERIANENNFYPYEtikheGGTREFLEELIKDKTPLYKDINIISiRGVIKNVNVEVSLSWSL 417
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 262 G-YQENIYCFTNNIpQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSGDDAREGLTAIVSVKVPDPKFSSQTKDK 340
Cdd:PTZ00109 418 EsYTALIKSFANNV-STTAGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQTKTK 496
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 341 LVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIDAARARDAARKAREMTRRKGALDLA-GLPGKLADCQEKDPALS 419
Cdd:PTZ00109 497 LGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYStILPGKLVDCISDDIERN 576
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 420 ELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFD-KMLSSQEVATLITALGCGIGRDEYNPD----------- 487
Cdd:PTZ00109 577 ELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNkKVFENSEIKLLITSIGLSVNPVTWRQYdlshgtkaskd 656
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 488 --------------------KLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKqeqyi 547
Cdd:PTZ00109 657 esvqnnnstltkkknslfdtPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNNR----- 731
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 548 kdedaMNQYQVSLALDNAELHvnpeapAFAGEGLEKLvqqynagIKLVDRMsrrypralvheliYVPRLTAEQCHDGAAV 627
Cdd:PTZ00109 732 -----MKQFNVSTKNSKKYIY------TWSDEELNVL-------IKLLNKD-------------YSSKETTRSVEEKGNA 780
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 628 EAWGKQLVEQLNAKEVGASQYSLEVEKHEELGLSVpkivvrthgvthehllsidlinskefgkladlsealdglieegay 707
Cdd:PTZ00109 781 PDLDNEYEDEKLDNKNMRENNVDEVELKTELGTNV--------------------------------------------- 815
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 708 ikrgerTQEVSSFVDALNWLVKESRRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVE 787
Cdd:PTZ00109 816 ------ADTEQTDELDINKAFFKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQ 889
|
890
....*....|
gi 857864355 788 PRRNFIEENA 797
Cdd:PTZ00109 890 SRKQFIFENS 899
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
4-795 |
4.61e-155 |
|
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: 466.32 E-value: 4.61e-155
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 4 NYDSSSIKVLKGLDAVRKRPGMYIgdtdDGTGLHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELH 83
Cdd:TIGR01055 3 NYSAKDIEVLDGLEPVRKRPGMYT----DTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIH 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 84 PEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDTDK- 162
Cdd:TIGR01055 79 PKEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKr 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 163 -TGTEIRFWPSEETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDErEEDKMDHFEYEGGIQAFV-EHLNTNKTpIIQKI 240
Cdd:TIGR01055 159 lTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDE-VNNTKALWNYPDGLKDYLsEAVNGDNT-LPPKP 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 241 FHFNSEREDgITVEVAMQW-NDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMDKEGFSKKAKTATSgDDAREG 319
Cdd:TIGR01055 237 FSGNFEGDD-EAVEWALLWlPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPRGVKLTA-EDIWDR 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 320 LTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKIIdaARARDAARKAREMTRRKGAL 399
Cdd:TIGR01055 315 CSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAI--SSAQRRKRAAKKVVRKKLTS 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 400 DLAgLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCgi 479
Cdd:TIGR01055 393 GPA-LPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGI-- 469
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 480 GRDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQPPLYKVKKGKQEQYIKDEDamnqyqvs 559
Cdd:TIGR01055 470 DPDSNDLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEE-------- 541
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 560 laldnaelhvnpeapafageglEKlvqqynagIKLVDRMSRrypralvheliyvprltaeqchdgaaveawgkqlveqln 639
Cdd:TIGR01055 542 ----------------------EK--------EKLLYKLKK--------------------------------------- 552
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 640 akevgasqyslevekheelglsvpkivvrthgvthehllsidlinskefgkladlsealdglieegayiKRGErtqevss 719
Cdd:TIGR01055 553 ---------------------------------------------------------------------KKGK------- 556
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 857864355 720 fvdalnwlvkesrrgLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDA--VGADLLFTTLMGDQV-EPRRNFIEE 795
Cdd:TIGR01055 557 ---------------PNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVqdQRVDKIMDMLLAKKRsEDRFNWLQE 620
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
36-210 |
5.40e-107 |
|
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: 325.26 E-value: 5.40e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 36 LHHMVFEVVDNSIDEALAGHCNDIIVTIHEDSSVSVSDDGRGIPTELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGL 115
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 116 HGVGVSVVNALSKQVTLTIHRGGKIHTQTYSHGEPQAPLAVIGDTDKTGTEIRFWPSEETFTNIEFHYDILAKRLRELSF 195
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELAF 160
|
170
....*....|....*
gi 857864355 196 LNSGVSIKLIDEREE 210
Cdd:cd16928 161 LNKGLKIVLEDERTG 175
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
419-533 |
9.26e-79 |
|
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: 248.72 E-value: 9.26e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 419 SELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGrDEYNPDKLRYHNIIIMT 498
Cdd:cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIG-EDFDLEKLRYHKIIIMT 79
|
90 100 110
....*....|....*....|....*....|....*
gi 857864355 499 DADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQP 533
Cdd:cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
220-377 |
1.77e-75 |
|
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: 242.47 E-value: 1.77e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 220 GGIQAFVEHLNTNKTPIIQKIFHFNSEReDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMD 299
Cdd:cd00822 1 GGLKDFVEELNKDKEPLHEEPIYIEGEK-DGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAK 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 857864355 300 KEGFSKKAKTATSGDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKII 377
Cdd:cd00822 80 KNNLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAI 157
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
419-533 |
2.64e-69 |
|
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: 223.54 E-value: 2.64e-69
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 419 SELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEYNPDKLRYHNIIIMT 498
Cdd:cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGKDDFDLDKLRYGKIIIMT 80
|
90 100 110
....*....|....*....|....*....|....*
gi 857864355 499 DADVDGSHIRTLLLTFFYRQMPELIERGYIYIAQP 533
Cdd:cd01030 81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
221-377 |
6.42e-65 |
|
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: 214.02 E-value: 6.42e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 221 GIQAFVEHLNTNKTPIIQKIFHFNSE-REDGITVEVAMQWNDGYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNSFMD 299
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIIYFEGEsPDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 857864355 300 KEGFSKKAKTATSGDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIENPGEAKTVCSKII 377
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
|
| GyrB_insert |
pfam18053 |
DNA gyrase B subunit insert domain; This is the insert domain found in DNA gyrase B subunit ... |
565-730 |
5.70e-63 |
|
DNA gyrase B subunit insert domain; This is the insert domain found in DNA gyrase B subunit proteins. Studies indicate that the insert has two functions, acting as a steric buttress to pre-configure the primary DNA-binding site, and serving as a relay that may help coordinate communication between different functional domains.
Pssm-ID: 465629 Cd Length: 167 Bit Score: 208.53 E-value: 5.70e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 565 AELHVNPEAPAFAGEGLEKLVQQYNAGIKLVDRMSRRYPRALVHELIYVPRLTAEQCHDGAAVEAWGKQLVEQLNAKEVG 644
Cdd:pfam18053 1 AALYPNEGAPPISGEALEELARQYRLAEAIIKRLSRRYDPAVLEALLYLPPLDAEDLDDEAAAEAWAAALEARLNQDGLG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 645 ASQYSLEVEKHEELGLSVPKIVVRTHGVTHEHLLSIDLINSKEFGKLADLSEALDGLIEEGAYIKRGERTQEVSSFVDAL 724
Cdd:pfam18053 81 GPRYRVSVEEDTERGKYLLRVTRRHHGNETVYVLDADFFESGDYRALAELGETLDGLIGEGAYIKRGEKEQPVESFKEAL 160
|
....*.
gi 857864355 725 NWLVKE 730
Cdd:pfam18053 161 DWLMEE 166
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
7-551 |
1.61e-53 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 196.13 E-value: 1.61e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 7 SSSIKVLKGLDAVRKRPGMYIGDTDDGT----------------GLHHMVFEVVDNSIDEALAG---HCNDIIVTIhEDS 67
Cdd:PHA02569 1 KDEFKVLSDREHILKRPGMYIGSVAYEAherflfgkftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTI-KNN 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 68 SVSVSDDGRGIPTEL--HPE-ENVSAAEVIMTVLHAGGKFDDNSyKVSGGLHGVGVSVVNALSKQVTLTIHRGGKIHTQT 144
Cdd:PHA02569 80 QVTVSDNGRGIPQAMvtTPEgEEIPGPVAAWTRTKAGSNFDDTN-RVTGGMNGVGSSLTNFFSVLFIGETCDGKNEVTVN 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 145 YSHGEPQAPLAVIGDTDKtGTEIRFWPSE---ETFTNIEFHYDILAKRLRELSFLNSGVSIKLIDEREEDKMDHFEYEGG 221
Cdd:PHA02569 159 CSNGAENISWSTKPGKGK-GTSVTFIPDFshfEVNGLDQQYLDIILDRLQTLAVVFPDIKFTFNGKKVSGKFKKYAKQFG 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 222 IQAFVeHLNTNKTpiiqkIFHFNSEredgitvevamqwnDGYQENiyCFTNNIPQRDGGAHLAGFRAALTRTLnsfmdKE 301
Cdd:PHA02569 238 DDTIV-QENDNVS-----IALAPSP--------------DGFRQL--SFVNGLHTKNGGHHVDCVMDDICEEL-----IP 290
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 302 GFSKKAKTATSGDDAREGLTAIVSVK-VPDPKFSSQTKDKLVSS--EVKSAVESTMgEKLSEFLIENPGeaktVCSKIID 378
Cdd:PHA02569 291 MIKKKHKIEVTKARVKECLTIVLFVRnMSNPRFDSQTKERLTSPfgEIRNHIDLDY-KKIAKQILKTEA----IIMPIIE 365
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 379 AARARDAARKAREMTR-RKGALDL-------AGLPGKLADcqekdpalSELYIVEGDSAGGSAKQGRNRKNQAILPLKGK 450
Cdd:PHA02569 366 AALARKLAAEKAAETKaAKKAKKAkvakhikANLIGKDAE--------TTLFLTEGDSAIGYLIEVRDEELHGGYPLRGK 437
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 451 ILNVEKARFDKMLSSQEVATLITALGCGIGRDEynpDKLRYHNIIIMTDADVDG-SHIRTLLLTFFYRqMPELIERGYIY 529
Cdd:PHA02569 438 VLNTWGMSYADILKNKELFDICAITGLVLGEKA---ENMNYKNIAIMTDADVDGkGSIYPLLLAFFSR-WPELFEQGRIR 513
|
570 580
....*....|....*....|..
gi 857864355 530 IAQPPLYKVKKGKQEQYIKDED 551
Cdd:PHA02569 514 FVKTPVIIAQVGKETKWFYSLD 535
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
22-544 |
7.04e-51 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 193.72 E-value: 7.04e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 22 RPGMYIGDT----------DDGTGlhHMVFEVV------------------DNSIDEALAGHCNDIIVTIHEDS-SVSVS 72
Cdd:PTZ00108 22 RPDTYIGSIetqtedmwvyDEEKN--RMVYKTItyvpglykifdeilvnaaDNKARDKGGHRMTYIKVTIDEENgEISVY 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 73 DDGRGIPTELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTI--HRGGKIHTQTYSHGEP 150
Cdd:PTZ00108 100 NDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECvdSKSGKKFKMTWTDNMS 179
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 151 QAPLAVIGDTDKTG--TEIRFWPSEETFTNIEF---HYDILAKRLRELSFLNSGVSIKLIDEREedKMDHF-EYeggIQA 224
Cdd:PTZ00108 180 KKSEPRITSYDGKKdyTKVTFYPDYAKFGMTEFdddMLRLLKKRVYDLAGCFGKLKVYLNGERI--AIKSFkDY---VDL 254
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 225 FVEHLNTNKTPIIQKIFHFNSERedgitVEVAMQWNDGyQENIYCFTNNIPQRDGGAHLagfRAALTRTLNSFMDKEGFS 304
Cdd:PTZ00108 255 YLPDGEEGKKPPYPFVYTSVNGR-----WEVVVSLSDG-QFQQVSFVNSICTTKGGTHV---NYILDQLISKLQEKAKKK 325
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 305 KKAKTATSGDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSEVKSAVESTMGEKLSEFLIEnpgeaktvcSKIIDAARARD 384
Cdd:PTZ00108 326 KKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVLK---------SPILENIVEWA 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 385 AARKAREMTRRKGALD---LAGLPgKLADCQEKDPALSE---LYIVEGDSAGGSAKQG---RNRKNQAILPLKGKILNVE 455
Cdd:PTZ00108 397 QAKLAAELNKKMKAGKksrILGIP-KLDDANDAGGKNSEectLILTEGDSAKALALAGlsvVGRDYYGVFPLRGKLLNVR 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 456 KARFDKMLSSQEVATLITALGCGIGRDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIE-RGYIYIAQPP 534
Cdd:PTZ00108 476 DASLKQLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHFWPSLLKnPGFLKEFITP 555
|
570
....*....|.
gi 857864355 535 LYKV-KKGKQE 544
Cdd:PTZ00108 556 IVKAtKKGNQV 566
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
22-543 |
7.06e-44 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 171.82 E-value: 7.06e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 22 RPGMYIGDTDDGT--------------------GLHHMVFEVVDNSIDEALAG-HCNDIIVTIH-EDSSVSVSDDGRGIP 79
Cdd:PLN03128 19 RPDTYIGSTEKHTqtlwvyeggemvnrevtyvpGLYKIFDEILVNAADNKQRDpSMDSLKVDIDvEQNTISVYNNGKGIP 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 80 TELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRG--GKIHTQTYSHGEPQAPLAVI 157
Cdd:PLN03128 99 VEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVETADGnrGKKYKQVFTNNMSVKSEPKI 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 158 GDTDK--TGTEIRFWPSEETFTNIEFHYDI---LAKRLRELS-FLNSGVSIKLIDEREEdkmdhfeyeggIQAFVEHLN- 230
Cdd:PLN03128 179 TSCKAseNWTKITFKPDLAKFNMTRLDEDVvalMSKRVYDIAgCLGKKLKVELNGKKLP-----------VKSFQDYVGl 247
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 231 ----TNKTPIIQKIFHFNSERedgitVEVAMQWNDGYQENIyCFTNNIPQRDGGAHLagfrAALTRTLNSFMdKEGFSKK 306
Cdd:PLN03128 248 ylgpNSREDPLPRIYEKVNDR-----WEVCVSLSDGSFQQV-SFVNSIATIKGGTHV----DYVADQIVKHI-QEKVKKK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 307 AKTATS--GDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSevksavESTMGEK--LS-EFL--IENPGEAKTVCSkiida 379
Cdd:PLN03128 317 NKNATHvkPFQIKNHLWVFVNCLIENPTFDSQTKETLTTR------PSSFGSKceLSeEFLkkVEKCGVVENILS----- 385
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 380 araRDAARKAREMTRRKGA--LDLAGLPgKLADCQEKDPALSE---LYIVEGDSAGGSAKQGR---NRKNQAILPLKGKI 451
Cdd:PLN03128 386 ---WAQFKQQKELKKKDGAkrQRLTGIP-KLDDANDAGGKKSKdctLILTEGDSAKALAMSGLsvvGRDHYGVFPLRGKL 461
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 452 LNVEKARFDKMLSSQEVATLITALGCGIGR--DEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIER-GYI 528
Cdd:PLN03128 462 LNVREASHKQIMKNAEITNIKQILGLQFGKtyDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKIpGFL 541
|
570
....*....|....*
gi 857864355 529 YIAQPPLYKVKKGKQ 543
Cdd:PLN03128 542 VEFITPIVKATKGGK 556
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
732-794 |
4.92e-41 |
|
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: 144.06 E-value: 4.92e-41
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 857864355 732 RRGLSLQRYKGLGEMNPDQLWETTMDPETRRMMQVTIEDAVGADLLFTTLMGDQVEPRRNFIE 794
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
65-524 |
4.76e-29 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 124.97 E-value: 4.76e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 65 EDSSVSVSDDGRGIPTELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTLTIHRGG--KIHT 142
Cdd:PLN03237 109 EQNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEFVIETADGKrqKKYK 188
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 143 QTYSH--GEPQAPLAVIGDTDKTGTEIRFWPSEETFTNIEFHYDILA---KRLRELS-FLNSGVSIKLIDEREEDKmdhf 216
Cdd:PLN03237 189 QVFSNnmGKKSEPVITKCKKSENWTKVTFKPDLAKFNMTHLEDDVVAlmkKRVVDIAgCLGKTVKVELNGKRIPVK---- 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 217 EYEGGIQAFVEHLNTNKTPIIQKIFHFNSEREdgitvEVAMQWNDG-YQEniYCFTNNIPQRDGGAHLAGFRAALTrtlN 295
Cdd:PLN03237 265 SFSDYVDLYLESANKSRPENLPRIYEKVNDRW-----EVCVSLSEGqFQQ--VSFVNSIATIKGGTHVDYVTNQIA---N 334
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 296 SFMDKegFSKKAKTAT-SGDDAREGLTAIVSVKVPDPKFSSQTKDKLVSSEvksaveSTMGEK--LSEFLIEnpgeaKTV 372
Cdd:PLN03237 335 HVMEA--VNKKNKNANiKAHNVKNHLWVFVNALIDNPAFDSQTKETLTLRQ------SSFGSKceLSEDFLK-----KVM 401
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 373 CSKIIDAARARDAARKAREMTRRKGA--LDLAGLPgKLADCQE---KDPALSELYIVEGDSAGGSAKQGRN---RKNQAI 444
Cdd:PLN03237 402 KSGIVENLLSWADFKQSKELKKTDGAktTRVTGIP-KLEDANEaggKNSEKCTLILTEGDSAKALAVAGLSvvgRNYYGV 480
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 445 LPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEYNPDKLRYHNIIIMTDADVDGSHIRTLLLTFFYRQMPELIE 524
Cdd:PLN03237 481 FPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSFWPSLLK 560
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
421-525 |
3.30e-24 |
|
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: 98.14 E-value: 3.30e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 421 LYIVEGDSAGGSAKQGRN---RKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEY-NPDKLRYHNIII 496
Cdd:cd03365 3 LILTEGDSAKALAVAGLSvvgRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYeSTKSLRYGRLMI 82
|
90 100
....*....|....*....|....*....
gi 857864355 497 MTDADVDGSHIRTLLLTFFYRQMPELIER 525
Cdd:cd03365 83 MTDQDHDGSHIKGLLINFIHSFWPSLLKI 111
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
222-341 |
1.41e-20 |
|
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: 87.32 E-value: 1.41e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 222 IQAFVEHLNTNKTPiiQKIFHFNSEReDGITVEVAMQWND---GYQENIYCFTNNIPQRDGGAHLAGFRAALTRTLNsfm 298
Cdd:cd00329 1 LKDRLAEILGDKVA--DKLIYVEGES-DGFRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN--- 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....*.
gi 857864355 299 dkegfskkaktatsGDDAREGLTAIVSVKVPD--PKFS-SQTKDKL 341
Cdd:cd00329 75 --------------GDDVRRYPVAVLSLKIPPslVDVNvHPTKEEV 106
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
32-171 |
2.52e-17 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 78.07 E-value: 2.52e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 32 DGTGLHHMVFEVVDNSIDEALAGhcNDIIVTIHEDS---SVSVSDDGRGIPtelhpeenvsaAEVIMTVLHAGGKFDDNS 108
Cdd:smart00387 2 DPDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGdhvEITVEDNGPGIP-----------PEDLEKIFEPFFRTDKRS 68
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 857864355 109 YKVSGglHGVGVSVVNALSKQVtltihrGGKIHtqtyshgepqaplavIGDTDKTGTEIRFWP 171
Cdd:smart00387 69 RKIGG--TGLGLSIVKKLVELH------GGEIS---------------VESEPGGGTTFTITL 108
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
420-533 |
3.37e-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: 74.32 E-value: 3.37e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 420 ELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLssqevatlitalgcgigrDEYNPDKLRYHNIIIMTD 499
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKAL------------------KALKELALKAKEVILATD 62
|
90 100 110
....*....|....*....|....*....|....*.
gi 857864355 500 ADVDGSHIRTLLLTFFyrqmpELIER--GYIYIAQP 533
Cdd:pfam01751 63 PDREGEAIALKLLELK-----ELLENagGRVEFSEL 93
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
31-171 |
9.36e-16 |
|
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: 73.56 E-value: 9.36e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 31 DDGTGLHHMVFEVVDNSIDEAlaGHCNDIIVTIHEDS--SVSVSDDGRGIPTELHPeenvsaaevimtvlHAGGKFDDnS 108
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGelTLTVEDNGIGIPPEDLP--------------RIFEPFST-A 63
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 857864355 109 YKVSGGLHGVGVSVVNALSKQVtltihrGGKIHtqtyshgepqaplavIGDTDKTGTEIRFWP 171
Cdd:pfam02518 64 DKRGGGGTGLGLSIVRKLVELL------GGTIT---------------VESEPGGGTTVTLTL 105
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
57-171 |
7.19e-13 |
|
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: 66.59 E-value: 7.19e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 57 NDIIVTIH-EDSSVSVSDDGRGIPTELHPEENVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSKQVTL-TI 134
Cdd:cd16930 27 TCIKVTIDpENNEISVWNNGKGIPVVIHKEEKIYVPEMIFGHLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFTVeTA 106
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90 100 110 120
....*....|....*....|....*....|....*....|
gi 857864355 135 HRG-GKIHTQTYSHGEPQAPLAVIGD--TDKTGTEIRFWP 171
Cdd:cd16930 107 DSEsKKKFKQTWTNNMGKASEPKITPyeKGKDYTKVTFKP 146
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| HATPase |
cd00075 |
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ... |
36-141 |
4.88e-06 |
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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: 45.67 E-value: 4.88e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 36 LHHMVFEVVDNSIDEALAGhcNDIIVTIHEDSS---VSVSDDGRGIPTELHPeenvsaaevimtvlHAGGKFDDNSYKVS 112
Cdd:cd00075 1 LEQVLSNLLDNALKYSPPG--GTIEISLRQEGDgvvLEVEDNGPGIPEEDLE--------------RIFERFYRGDKSRE 64
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90 100
....*....|....*....|....*....
gi 857864355 113 GGLHGVGVSVVNALSKQvtltiHrGGKIH 141
Cdd:cd00075 65 GGGTGLGLAIVRRIVEA-----H-GGRIT 87
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| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
419-518 |
1.41e-05 |
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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: 43.95 E-value: 1.41e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857864355 419 SELYIVEGDSAGGSAKQGRnRKNQAILPLKGKILNvekarfdkmlssQEVATLITALGcgigrdeynpdklRYHNIIIMT 498
Cdd:cd00188 1 KKLIIVEGPSDALALAQAG-GYGGAVVALGGHALN------------KTRELLKRLLG-------------EAKEVIIAT 54
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90 100
....*....|....*....|
gi 857864355 499 DADVDGSHIRTLLLTFFYRQ 518
Cdd:cd00188 55 DADREGEAIALRLLELLKSL 74
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