Citrus Sinensis ID: 008738
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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Close Homologs for Annotation Transfer
Close Homologs in SWISS-PROT Database Detected by BLAST 
Original result of BLAST against SWISS-PROT Database
| ID | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 555 | 2.2.26 [Sep-21-2011] | |||||||
| Q5YLB4 | 731 | DNA gyrase subunit B, chl | N/A | no | 0.998 | 0.757 | 0.870 | 0.0 | |
| Q94BZ7 | 732 | DNA gyrase subunit B, mit | yes | no | 0.998 | 0.756 | 0.841 | 0.0 | |
| Q9SS38 | 730 | DNA gyrase subunit B, chl | no | no | 0.998 | 0.758 | 0.842 | 0.0 | |
| Q5NBJ3 | 729 | DNA gyrase subunit B, chl | yes | no | 0.996 | 0.758 | 0.810 | 0.0 | |
| P77993 | 636 | DNA gyrase subunit B OS=T | yes | no | 0.969 | 0.845 | 0.500 | 1e-154 | |
| P05652 | 638 | DNA gyrase subunit B OS=B | yes | no | 0.974 | 0.847 | 0.504 | 1e-152 | |
| P94604 | 637 | DNA gyrase subunit B OS=C | yes | no | 0.967 | 0.843 | 0.505 | 1e-150 | |
| O50627 | 637 | DNA gyrase subunit B OS=B | yes | no | 0.972 | 0.847 | 0.509 | 1e-149 | |
| Q8CQK4 | 643 | DNA gyrase subunit B OS=S | yes | no | 0.974 | 0.841 | 0.510 | 1e-145 | |
| Q5HK03 | 643 | DNA gyrase subunit B OS=S | yes | no | 0.974 | 0.841 | 0.510 | 1e-145 |
| >sp|Q5YLB4|GYRB_NICBE DNA gyrase subunit B, chloroplastic/mitochondrial OS=Nicotiana benthamiana GN=GYRB PE=2 SV=1 | Back alignment and function desciption |
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Score = 976 bits (2524), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 482/554 (87%), Positives = 529/554 (95%)
Query: 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPV 61
++TVLHAGGKFGGSSSGY+VSGGLHGVGLSVVNALS++LEVT+WRDG EY QKYSRGKP+
Sbjct: 178 VLTVLHAGGKFGGSSSGYNVSGGLHGVGLSVVNALSQALEVTIWRDGKEYQQKYSRGKPI 237
Query: 62 TTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 121
TTL CH LPV+ +DRQGT IRFWPDK+VFTT +QFD+NTIAGRIRELAFLNP+LTIAL+K
Sbjct: 238 TTLICHDLPVEMRDRQGTAIRFWPDKEVFTTEMQFDYNTIAGRIRELAFLNPELTIALKK 297
Query: 122 EDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYS 181
ED DPEK Q NEYF+AGGL EYV+WLN DKKPLHDV+GFRK+ DGITID+ALQWCSDAYS
Sbjct: 298 EDIDPEKIQCNEYFYAGGLVEYVKWLNADKKPLHDVLGFRKEADGITIDMALQWCSDAYS 357
Query: 182 DTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCII 241
DTMLGYANSIRTIDGGTHI+GVKA+LTR LN+LGKKSKT+K+KDISLSGEHVREGLTC+I
Sbjct: 358 DTMLGYANSIRTIDGGTHIDGVKAALTRILNNLGKKSKTIKEKDISLSGEHVREGLTCVI 417
Query: 242 SVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAAL 301
SV+VPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL+ALKAAL
Sbjct: 418 SVKVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLNALKAAL 477
Query: 302 AAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAI 361
AAKRAR+LVRQKSVL+SSSLPGKLADCS+T PEE+EIFIVEGDSAGGSAKQGRDRRFQAI
Sbjct: 478 AAKRARELVRQKSVLKSSSLPGKLADCSATNPEEAEIFIVEGDSAGGSAKQGRDRRFQAI 537
Query: 362 LPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG 421
LPLRGKILN+ERKDEAAMYKNEEIQNLI LGLGVKGEDFKKEALRYHKIIILTDADVDG
Sbjct: 538 LPLRGKILNIERKDEAAMYKNEEIQNLILGLGLGVKGEDFKKEALRYHKIIILTDADVDG 597
Query: 422 AHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNA 481
AHIRTLLLTFF+RYQ+ LF+EGCIYVGVPPLYKVERGKQV YCYDDAELKKV+ SFPSNA
Sbjct: 598 AHIRTLLLTFFFRYQRALFEEGCIYVGVPPLYKVERGKQVYYCYDDAELKKVQRSFPSNA 657
Query: 482 LYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI 541
Y+IQRFKGLGEMMP QLWETT+NPE R+LKQLV+EDAAEANVVFSSLMG+RVD RK+LI
Sbjct: 658 SYNIQRFKGLGEMMPAQLWETTMNPETRLLKQLVVEDAAEANVVFSSLMGSRVDIRKQLI 717
Query: 542 QNAANLVNLDHLDI 555
QN+A+++NL+ LDI
Sbjct: 718 QNSASMMNLEQLDI 731
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Seems to play a critical role in chloroplast nucleoid partitioning by regulating DNA topology. DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner. Nicotiana benthamiana (taxid: 4100) EC: 5EC: .EC: 9EC: 9EC: .EC: 1EC: .EC: 3 |
| >sp|Q94BZ7|GYRBM_ARATH DNA gyrase subunit B, mitochondrial OS=Arabidopsis thaliana GN=GYRBM PE=2 SV=1 | Back alignment and function description |
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| >sp|Q9SS38|GYRBP_ARATH DNA gyrase subunit B, chloroplastic OS=Arabidopsis thaliana GN=GYRBC PE=2 SV=3 | Back alignment and function description |
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| >sp|Q5NBJ3|GYRB_ORYSJ DNA gyrase subunit B, chloroplastic/mitochondrial OS=Oryza sativa subsp. japonica GN=GYRB PE=2 SV=1 | Back alignment and function description |
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| >sp|P77993|GYRB_THEMA DNA gyrase subunit B OS=Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) GN=gyrB PE=3 SV=2 | Back alignment and function description |
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| >sp|P05652|GYRB_BACSU DNA gyrase subunit B OS=Bacillus subtilis (strain 168) GN=gyrB PE=3 SV=1 | Back alignment and function description |
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| >sp|P94604|GYRB_CLOAB DNA gyrase subunit B OS=Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787) GN=gyrB PE=3 SV=2 | Back alignment and function description |
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| >sp|O50627|GYRB_BACHD DNA gyrase subunit B OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) GN=gyrB PE=3 SV=1 | Back alignment and function description |
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| >sp|Q8CQK4|GYRB_STAES DNA gyrase subunit B OS=Staphylococcus epidermidis (strain ATCC 12228) GN=gyrB PE=3 SV=1 | Back alignment and function description |
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| >sp|Q5HK03|GYRB_STAEQ DNA gyrase subunit B OS=Staphylococcus epidermidis (strain ATCC 35984 / RP62A) GN=gyrB PE=3 SV=1 | Back alignment and function description |
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Close Homologs in the Non-Redundant Database Detected by BLAST
Original result of BLAST against Nonredundant Database
| GI | Alignment Graph | Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 555 | ||||||
| 255562314 | 732 | DNA gyrase subunit B, putative [Ricinus | 0.998 | 0.756 | 0.873 | 0.0 | |
| 297739950 | 707 | unnamed protein product [Vitis vinifera] | 0.998 | 0.783 | 0.866 | 0.0 | |
| 225441215 | 719 | PREDICTED: DNA gyrase subunit B, chlorop | 0.998 | 0.770 | 0.866 | 0.0 | |
| 224086827 | 653 | predicted protein [Populus trichocarpa] | 0.998 | 0.848 | 0.857 | 0.0 | |
| 75288399 | 731 | RecName: Full=DNA gyrase subunit B, chlo | 0.998 | 0.757 | 0.870 | 0.0 | |
| 356504692 | 726 | PREDICTED: DNA gyrase subunit B, chlorop | 0.998 | 0.763 | 0.841 | 0.0 | |
| 224139720 | 700 | predicted protein [Populus trichocarpa] | 0.983 | 0.78 | 0.844 | 0.0 | |
| 356571931 | 724 | PREDICTED: DNA gyrase subunit B, chlorop | 0.998 | 0.765 | 0.835 | 0.0 | |
| 18414465 | 732 | DNA gyrase subunit B [Arabidopsis thalia | 0.998 | 0.756 | 0.841 | 0.0 | |
| 297810505 | 729 | hypothetical protein ARALYDRAFT_487191 [ | 0.998 | 0.759 | 0.839 | 0.0 |
| >gi|255562314|ref|XP_002522164.1| DNA gyrase subunit B, putative [Ricinus communis] gi|223538602|gb|EEF40205.1| DNA gyrase subunit B, putative [Ricinus communis] | Back alignment and taxonomy information |
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Score = 1005 bits (2598), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 484/554 (87%), Positives = 530/554 (95%)
Query: 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPV 61
++TVLHAGGKFGGS+SGYSVSGGLHGVGLSVVNALSE LEVTVWRDGMEY Q+YSRG PV
Sbjct: 179 VLTVLHAGGKFGGSNSGYSVSGGLHGVGLSVVNALSEGLEVTVWRDGMEYRQRYSRGNPV 238
Query: 62 TTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 121
T L CH L V+S+DRQGT +RFWPDK+VFTTAI+FD+NTIAGR+RELAFLNPKLTI L+K
Sbjct: 239 TILMCHSLAVESRDRQGTCVRFWPDKEVFTTAIEFDYNTIAGRVRELAFLNPKLTITLKK 298
Query: 122 EDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYS 181
ED+DPEKNQY+EYF+AGGL EYV+WLNTDKKPLHDVVGF K++DGITID+ALQWCSDAYS
Sbjct: 299 EDNDPEKNQYDEYFYAGGLIEYVKWLNTDKKPLHDVVGFGKEIDGITIDMALQWCSDAYS 358
Query: 182 DTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCII 241
DT+LGYANSIRTIDGGTHI+G KASLTRTLNSLGKKSK +K+KDI+LSGEHVREGLTCI+
Sbjct: 359 DTILGYANSIRTIDGGTHIDGFKASLTRTLNSLGKKSKIIKEKDINLSGEHVREGLTCIV 418
Query: 242 SVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAAL 301
SV+VP+PEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL+ALKAAL
Sbjct: 419 SVKVPSPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLNALKAAL 478
Query: 302 AAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAI 361
AAK+AR+LVRQKSVLR+SSLPGKLADCSST PEESEIFIVEGDSAGGSAKQGRDRRFQAI
Sbjct: 479 AAKKARELVRQKSVLRTSSLPGKLADCSSTNPEESEIFIVEGDSAGGSAKQGRDRRFQAI 538
Query: 362 LPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG 421
LPLRGKILN+ERKDEAAMYKNEEIQNLI LGLGVKGEDFKKEALRYHKIIILTDADVDG
Sbjct: 539 LPLRGKILNIERKDEAAMYKNEEIQNLILGLGLGVKGEDFKKEALRYHKIIILTDADVDG 598
Query: 422 AHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNA 481
AHIRTLLLTFF+RYQK LF+EGCIYVGVPPLYKVERGKQV YCYD+AELKK++SSFP NA
Sbjct: 599 AHIRTLLLTFFFRYQKALFEEGCIYVGVPPLYKVERGKQVYYCYDEAELKKLRSSFPQNA 658
Query: 482 LYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI 541
Y+IQRFKGLGEMMP+QLWETT++PEQR+LKQLV+EDAAEANVVFSSLMGARVD RKELI
Sbjct: 659 SYNIQRFKGLGEMMPLQLWETTMDPEQRLLKQLVVEDAAEANVVFSSLMGARVDVRKELI 718
Query: 542 QNAANLVNLDHLDI 555
Q++A VN+D LDI
Sbjct: 719 QSSARAVNIDLLDI 732
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Source: Ricinus communis Species: Ricinus communis Genus: Ricinus Family: Euphorbiaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|297739950|emb|CBI30132.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|225441215|ref|XP_002266668.1| PREDICTED: DNA gyrase subunit B, chloroplastic/mitochondrial-like [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|224086827|ref|XP_002307976.1| predicted protein [Populus trichocarpa] gi|222853952|gb|EEE91499.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|75288399|sp|Q5YLB4.1|GYRB_NICBE RecName: Full=DNA gyrase subunit B, chloroplastic/mitochondrial; Flags: Precursor gi|38017095|gb|AAR07943.1| DNA gyrase B subunit [Nicotiana benthamiana] | Back alignment and taxonomy information |
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| >gi|356504692|ref|XP_003521129.1| PREDICTED: DNA gyrase subunit B, chloroplastic/mitochondrial-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|224139720|ref|XP_002323244.1| predicted protein [Populus trichocarpa] gi|222867874|gb|EEF05005.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|356571931|ref|XP_003554124.1| PREDICTED: DNA gyrase subunit B, chloroplastic/mitochondrial-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|18414465|ref|NP_568133.1| DNA gyrase subunit B [Arabidopsis thaliana] gi|75165162|sp|Q94BZ7.1|GYRBM_ARATH RecName: Full=DNA gyrase subunit B, mitochondrial; Flags: Precursor gi|14517374|gb|AAK62578.1| AT3g10270/F14P13_13 [Arabidopsis thaliana] gi|22655426|gb|AAM98305.1| At3g10270/F14P13_13 [Arabidopsis thaliana] gi|332003319|gb|AED90702.1| DNA gyrase subunit B [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|297810505|ref|XP_002873136.1| hypothetical protein ARALYDRAFT_487191 [Arabidopsis lyrata subsp. lyrata] gi|297318973|gb|EFH49395.1| hypothetical protein ARALYDRAFT_487191 [Arabidopsis lyrata subsp. lyrata] | Back alignment and taxonomy information |
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Prediction of Gene Ontology (GO) Terms
Close Homologs with Gene Ontology terms Detected by BLAST
Original result of BLAST against Gene Ontology (AMIGO)
| ID |
Alignment graph |
Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 555 | ||||||
| TAIR|locus:2146698 | 732 | GYRB2 "DNA GYRASE B2" [Arabido | 0.998 | 0.756 | 0.763 | 8.4e-232 | |
| UNIPROTKB|Q5NBJ3 | 729 | GYRB "DNA gyrase subunit B, ch | 0.996 | 0.758 | 0.729 | 3e-220 | |
| UNIPROTKB|Q7NHM9 | 644 | gyrB "DNA gyrase subunit B" [G | 0.931 | 0.802 | 0.538 | 1e-148 | |
| UNIPROTKB|A8IIG8 | 649 | TOP3 "DNA gyrase subunit B-lik | 0.996 | 0.852 | 0.497 | 2.8e-137 | |
| TIGR_CMR|CHY_2705 | 635 | CHY_2705 "DNA gyrase, B subuni | 0.911 | 0.796 | 0.489 | 1.1e-128 | |
| UNIPROTKB|P05652 | 638 | gyrB "DNA gyrase subunit B" [B | 0.974 | 0.847 | 0.448 | 5.5e-125 | |
| TIGR_CMR|BA_0005 | 640 | BA_0005 "DNA gyrase, B subunit | 0.913 | 0.792 | 0.478 | 3e-124 | |
| UNIPROTKB|P77993 | 636 | gyrB "DNA gyrase subunit B" [T | 0.911 | 0.795 | 0.470 | 8.3e-122 | |
| UNIPROTKB|Q8TQG0 | 634 | gyrB "DNA gyrase subunit B" [M | 0.913 | 0.799 | 0.484 | 1.3e-121 | |
| UNIPROTKB|Q8A277 | 653 | gyrB "DNA gyrase subunit B" [B | 0.920 | 0.782 | 0.444 | 4.5e-114 |
| TAIR|locus:2146698 GYRB2 "DNA GYRASE B2" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 2236 (792.2 bits), Expect = 8.4e-232, P = 8.4e-232
Identities = 423/554 (76%), Positives = 470/554 (84%)
Query: 2 IVTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEVTVWRDGMEYHQKYSRGKPV 61
++TVLHA NALSE+LEV+VWRDGME+ Q YSRGKP+
Sbjct: 179 VLTVLHAGGKFGGTSSGYSVSGGLHGVGLSVVNALSEALEVSVWRDGMEHKQNYSRGKPI 238
Query: 62 TTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 121
TTLTC VLP++SK +GT IRFWPDK+VFTTAI+FDHNTIAGRIRELAFLNPK+TI+L+K
Sbjct: 239 TTLTCRVLPLESKGTKGTSIRFWPDKEVFTTAIEFDHNTIAGRIRELAFLNPKVTISLKK 298
Query: 122 EDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYS 181
ED DPEK QY+EY FAGGL EYV WLNTDK P+HDV+GFR++++G T+D+ALQWCSDAYS
Sbjct: 299 EDDDPEKTQYSEYSFAGGLTEYVSWLNTDKNPIHDVLGFRREINGATVDVALQWCSDAYS 358
Query: 182 DTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCII 241
DTMLGYANSIRTIDGGTHIEGVKASLTRTLN+L KKSKTVK+KDISLSGEHVREGLTCI+
Sbjct: 359 DTMLGYANSIRTIDGGTHIEGVKASLTRTLNTLAKKSKTVKEKDISLSGEHVREGLTCIV 418
Query: 242 SVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVXXXXXXXXXXXXXXXX 301
SV+VPNPEFEGQTKTRLGNPEVRK+VDQSVQEYLTE+LELHPD+
Sbjct: 419 SVKVPNPEFEGQTKTRLGNPEVRKIVDQSVQEYLTEFLELHPDILESIISKSLNAYKAAL 478
Query: 302 XXXXXXXXVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAI 361
VR KSVL+SSSLPGKLADCSST PE SEIFIVEGDSAGGSAKQGRDRRFQAI
Sbjct: 479 AAKRARELVRSKSVLKSSSLPGKLADCSSTDPEVSEIFIVEGDSAGGSAKQGRDRRFQAI 538
Query: 362 LPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDG 421
LPLRGKILN+ERKDEAAMYKNEEIQNLI LGLGVKGEDFKKE LRYHKIIILTDADVDG
Sbjct: 539 LPLRGKILNIERKDEAAMYKNEEIQNLILGLGLGVKGEDFKKENLRYHKIIILTDADVDG 598
Query: 422 AHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNA 481
AHIRTLLLTFF+RYQ+ LFD GCIYVGVPPL+KVERGK QYCYDDA+LKK+ S+FP+NA
Sbjct: 599 AHIRTLLLTFFFRYQRALFDAGCIYVGVPPLFKVERGKNAQYCYDDADLKKITSNFPANA 658
Query: 482 LYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI 541
Y+IQRFKGLGEMMP QLWETT+NPE R+LKQLV++D AEAN+ FSSLMGARVD RKELI
Sbjct: 659 SYNIQRFKGLGEMMPEQLWETTMNPETRILKQLVVDDIAEANMTFSSLMGARVDVRKELI 718
Query: 542 QNAANLVNLDHLDI 555
+NAA +NL LDI
Sbjct: 719 KNAATRINLQRLDI 732
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| UNIPROTKB|Q5NBJ3 GYRB "DNA gyrase subunit B, chloroplastic/mitochondrial" [Oryza sativa Japonica Group (taxid:39947)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q7NHM9 gyrB "DNA gyrase subunit B" [Gloeobacter violaceus PCC 7421 (taxid:251221)] | Back alignment and assigned GO terms |
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| UNIPROTKB|A8IIG8 TOP3 "DNA gyrase subunit B-like protein" [Chlamydomonas reinhardtii (taxid:3055)] | Back alignment and assigned GO terms |
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| TIGR_CMR|CHY_2705 CHY_2705 "DNA gyrase, B subunit" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] | Back alignment and assigned GO terms |
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| UNIPROTKB|P05652 gyrB "DNA gyrase subunit B" [Bacillus subtilis subsp. subtilis str. 168 (taxid:224308)] | Back alignment and assigned GO terms |
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| TIGR_CMR|BA_0005 BA_0005 "DNA gyrase, B subunit" [Bacillus anthracis str. Ames (taxid:198094)] | Back alignment and assigned GO terms |
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| UNIPROTKB|P77993 gyrB "DNA gyrase subunit B" [Thermotoga maritima MSB8 (taxid:243274)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q8TQG0 gyrB "DNA gyrase subunit B" [Methanosarcina acetivorans C2A (taxid:188937)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q8A277 gyrB "DNA gyrase subunit B" [Bacteroides thetaiotaomicron VPI-5482 (taxid:226186)] | Back alignment and assigned GO terms |
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Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
| ID | Name | Annotated EC number | Identity | Query coverage | Hit coverage | RBH(Q2H) | RBH(H2Q) |
| P0C5C5 | GYRB_MYCTU | 5, ., 9, 9, ., 1, ., 3 | 0.4310 | 0.9747 | 0.8014 | yes | no |
| Q9ZFK1 | GYRB_BORHE | 5, ., 9, 9, ., 1, ., 3 | 0.4558 | 0.9729 | 0.8517 | yes | no |
| P22447 | GYRB_MYCPN | 5, ., 9, 9, ., 1, ., 3 | 0.4448 | 0.9729 | 0.8307 | yes | no |
| P77993 | GYRB_THEMA | 5, ., 9, 9, ., 1, ., 3 | 0.5008 | 0.9693 | 0.8459 | yes | no |
| Q9X3Y6 | GYRB_BACAN | 5, ., 9, 9, ., 1, ., 3 | 0.5027 | 0.9693 | 0.8406 | yes | no |
| Q59961 | PARE_STRPN | 5, ., 9, 9, ., 1, ., - | 0.4528 | 0.9549 | 0.8191 | yes | no |
| Q5HK03 | GYRB_STAEQ | 5, ., 9, 9, ., 1, ., 3 | 0.5108 | 0.9747 | 0.8413 | yes | no |
| P33769 | GYRB_BORBU | 5, ., 9, 9, ., 1, ., 3 | 0.4669 | 0.9657 | 0.8454 | yes | no |
| P05652 | GYRB_BACSU | 5, ., 9, 9, ., 1, ., 3 | 0.5045 | 0.9747 | 0.8479 | yes | no |
| O08399 | GYRB_TREPA | 5, ., 9, 9, ., 1, ., 3 | 0.4750 | 0.9621 | 0.8383 | yes | no |
| Q6GD85 | GYRB_STAAS | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | yes | no |
| Q8CQK4 | GYRB_STAES | 5, ., 9, 9, ., 1, ., 3 | 0.5108 | 0.9747 | 0.8413 | yes | no |
| Q5YLB4 | GYRB_NICBE | 5, ., 9, 9, ., 1, ., 3 | 0.8700 | 0.9981 | 0.7578 | N/A | no |
| P47249 | GYRB_MYCGE | 5, ., 9, 9, ., 1, ., 3 | 0.4430 | 0.9729 | 0.8307 | yes | no |
| P0DG05 | GYRB_STRPQ | 5, ., 9, 9, ., 1, ., 3 | 0.4649 | 0.9729 | 0.8307 | yes | no |
| P0A0K7 | GYRB_STAAW | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | yes | no |
| P0A0K8 | GYRB_STAAU | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | yes | no |
| O50627 | GYRB_BACHD | 5, ., 9, 9, ., 1, ., 3 | 0.5099 | 0.9729 | 0.8477 | yes | no |
| P66936 | GYRB_STAAM | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | yes | no |
| P66937 | GYRB_STAAN | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | yes | no |
| P47720 | GYRB_MYCGA | 5, ., 9, 9, ., 1, ., 3 | 0.4511 | 0.9693 | 0.8302 | yes | no |
| O29720 | GYRB_ARCFU | 5, ., 9, 9, ., 1, ., 3 | 0.4782 | 0.9639 | 0.8465 | yes | no |
| Q2FKQ1 | GYRB_STAA3 | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | N/A | no |
| A5TY73 | GYRB_MYCTA | 5, ., 9, 9, ., 1, ., 3 | 0.4310 | 0.9747 | 0.8014 | yes | no |
| D4GZ01 | GYRB_HALVD | 5, ., 9, 9, ., 1, ., 3 | 0.4890 | 0.9675 | 0.8403 | yes | no |
| O87545 | GYRB_TREDE | 5, ., 9, 9, ., 1, ., 3 | 0.4622 | 0.9729 | 0.8463 | yes | no |
| Q5NBJ3 | GYRB_ORYSJ | 5, ., 9, 9, ., 1, ., 3 | 0.8104 | 0.9963 | 0.7585 | yes | no |
| P94604 | GYRB_CLOAB | 5, ., 9, 9, ., 1, ., 3 | 0.5053 | 0.9675 | 0.8430 | yes | no |
| Q6GKU0 | GYRB_STAAR | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | yes | no |
| Q5HJZ1 | GYRB_STAAC | 5, ., 9, 9, ., 1, ., 3 | 0.5126 | 0.9765 | 0.8416 | yes | no |
| Q94BZ7 | GYRBM_ARATH | 5, ., 9, 9, ., 1, ., 3 | 0.8411 | 0.9981 | 0.7568 | yes | no |
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 5.99.1.3 | 0.979 |
| 3rd Layer | 5.99.1 | 0.983 |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
Fail to connect to STRING server
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 555 | |||
| PRK05644 | 638 | PRK05644, gyrB, DNA gyrase subunit B; Validated | 0.0 | |
| COG0187 | 635 | COG0187, GyrB, Type IIA topoisomerase (DNA gyrase/ | 0.0 | |
| TIGR01059 | 654 | TIGR01059, gyrB, DNA gyrase, B subunit | 0.0 | |
| PRK05559 | 631 | PRK05559, PRK05559, DNA topoisomerase IV subunit B | 0.0 | |
| PRK14939 | 756 | PRK14939, gyrB, DNA gyrase subunit B; Provisional | 0.0 | |
| smart00433 | 594 | smart00433, TOP2c, TopoisomeraseII | 0.0 | |
| TIGR01058 | 637 | TIGR01058, parE_Gpos, DNA topoisomerase IV, B subu | 0.0 | |
| PTZ00109 | 903 | PTZ00109, PTZ00109, DNA gyrase subunit b; Provisio | 1e-141 | |
| TIGR01055 | 625 | TIGR01055, parE_Gneg, DNA topoisomerase IV, B subu | 1e-120 | |
| cd00822 | 172 | cd00822, TopoII_Trans_DNA_gyrase, TopoIIA_Trans_DN | 8e-75 | |
| cd03366 | 114 | cd03366, TOPRIM_TopoIIA_GyrB, TOPRIM_TopoIIA_GyrB: | 3e-73 | |
| cd01030 | 115 | cd01030, TOPRIM_TopoIIA_like, TOPRIM_TopoIIA_like: | 4e-67 | |
| pfam00204 | 173 | pfam00204, DNA_gyraseB, DNA gyrase B | 7e-62 | |
| PHA02569 | 602 | PHA02569, 39, DNA topoisomerase II large subunit; | 4e-48 | |
| PTZ00108 | 1388 | PTZ00108, PTZ00108, DNA topoisomerase 2-like prote | 1e-37 | |
| PLN03128 | 1135 | PLN03128, PLN03128, DNA topoisomerase 2; Provision | 9e-33 | |
| pfam00986 | 65 | pfam00986, DNA_gyraseB_C, DNA gyrase B subunit, ca | 4e-29 | |
| PLN03237 | 1465 | PLN03237, PLN03237, DNA topoisomerase 2; Provision | 2e-27 | |
| PRK14939 | 756 | PRK14939, gyrB, DNA gyrase subunit B; Provisional | 4e-23 | |
| cd03365 | 120 | cd03365, TOPRIM_TopoIIA, TOPRIM_TopoIIA: topoisome | 1e-21 | |
| PTZ00109 | 903 | PTZ00109, PTZ00109, DNA gyrase subunit b; Provisio | 1e-18 | |
| pfam01751 | 86 | pfam01751, Toprim, Toprim domain | 4e-18 | |
| cd00329 | 107 | cd00329, TopoII_MutL_Trans, MutL_Trans: transducer | 2e-15 | |
| cd00188 | 83 | cd00188, TOPRIM, Topoisomerase-primase domain | 9e-08 | |
| cd03481 | 153 | cd03481, TopoIIA_Trans_ScTopoIIA, TopoIIA_Trans_Sc | 5e-04 | |
| pfam02518 | 111 | pfam02518, HATPase_c, Histidine kinase-, DNA gyras | 0.003 | |
| smart00387 | 111 | smart00387, HATPase_c, Histidine kinase-like ATPas | 0.004 |
| >gnl|CDD|235542 PRK05644, gyrB, DNA gyrase subunit B; Validated | Back alignment and domain information |
|---|
Score = 865 bits (2239), Expect = 0.0
Identities = 312/554 (56%), Positives = 404/554 (72%), Gaps = 16/554 (2%)
Query: 2 IVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPV 61
++TVLHAGGKFGG GY VSGGLHGVG+SVVNALS LEV V RDG Y+Q+Y RG PV
Sbjct: 96 VLTVLHAGGKFGGG--GYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPV 153
Query: 62 TTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRK 121
T L + D GT + F PD ++F T +FD++T+A R+RELAFLN L I L
Sbjct: 154 TPLEV----IGETDETGTTVTFKPDPEIFET-TEFDYDTLATRLRELAFLNKGLKITLT- 207
Query: 122 EDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAY 180
D + + + + GG++EYV++LN +K+PLH + + F + DGI +++A+Q+ D Y
Sbjct: 208 -DEREGEEKEETFHYEGGIKEYVEYLNRNKEPLHEEPIYFEGEKDGIEVEVAMQYN-DGY 265
Query: 181 SDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCI 240
S+ +L +AN+I T +GGTH EG K +LTR +N +K+K +K+KD +L+GE VREGLT +
Sbjct: 266 SENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGLTAV 325
Query: 241 ISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAA 300
ISV+ P P+FEGQTKT+LGN EVR +VD V E L+E+LE +P+V I+ K++ A +A
Sbjct: 326 ISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAR 385
Query: 301 LAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQA 360
AA++AR+L R+KS L SSSLPGKLADCSS PEESE++IVEGDSAGGSAKQGRDRRFQA
Sbjct: 386 EAARKARELTRRKSALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQA 445
Query: 361 ILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVD 420
ILPLRGKILNVE+ + KNEEI+ LI ALG G+ G+DF LRYHKIII+TDADVD
Sbjct: 446 ILPLRGKILNVEKARLDKILKNEEIRALITALGTGI-GDDFDISKLRYHKIIIMTDADVD 504
Query: 421 GAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFP-- 478
GAHIRTLLLTFFYRY + L + G +Y+ PPLYK+++G + +Y Y D EL ++ +
Sbjct: 505 GAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGK-EYAYSDEELDEILAELKLK 563
Query: 479 SNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRK 538
N Y IQR+KGLGEM P QLWETT++PE R L Q+ IEDAAEA+ +FS LMG V+ R+
Sbjct: 564 GNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRR 623
Query: 539 ELIQ-NAANLVNLD 551
E I+ NA + NLD
Sbjct: 624 EFIEENAKYVRNLD 637
|
Length = 638 |
| >gnl|CDD|223265 COG0187, GyrB, Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >gnl|CDD|233254 TIGR01059, gyrB, DNA gyrase, B subunit | Back alignment and domain information |
|---|
| >gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|237860 PRK14939, gyrB, DNA gyrase subunit B; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|214659 smart00433, TOP2c, TopoisomeraseII | Back alignment and domain information |
|---|
| >gnl|CDD|130130 TIGR01058, parE_Gpos, DNA topoisomerase IV, B subunit, Gram-positive | Back alignment and domain information |
|---|
| >gnl|CDD|240272 PTZ00109, PTZ00109, DNA gyrase subunit b; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|130127 TIGR01055, parE_Gneg, DNA topoisomerase IV, B subunit, proteobacterial | Back alignment and domain information |
|---|
| >gnl|CDD|238419 cd00822, TopoII_Trans_DNA_gyrase, 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 | Back alignment and domain information |
|---|
| >gnl|CDD|173786 cd03366, TOPRIM_TopoIIA_GyrB, 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 | Back alignment and domain information |
|---|
| >gnl|CDD|173780 cd01030, TOPRIM_TopoIIA_like, 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 | Back alignment and domain information |
|---|
| >gnl|CDD|215785 pfam00204, DNA_gyraseB, DNA gyrase B | Back alignment and domain information |
|---|
| >gnl|CDD|177398 PHA02569, 39, DNA topoisomerase II large subunit; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|215593 PLN03128, PLN03128, DNA topoisomerase 2; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|201537 pfam00986, DNA_gyraseB_C, DNA gyrase B subunit, carboxyl terminus | Back alignment and domain information |
|---|
| >gnl|CDD|215641 PLN03237, PLN03237, DNA topoisomerase 2; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|237860 PRK14939, gyrB, DNA gyrase subunit B; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|173785 cd03365, TOPRIM_TopoIIA, 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 | Back alignment and domain information |
|---|
| >gnl|CDD|240272 PTZ00109, PTZ00109, DNA gyrase subunit b; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|216679 pfam01751, Toprim, Toprim domain | Back alignment and domain information |
|---|
| >gnl|CDD|238202 cd00329, TopoII_MutL_Trans, 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 | Back alignment and domain information |
|---|
| >gnl|CDD|173773 cd00188, TOPRIM, Topoisomerase-primase domain | Back alignment and domain information |
|---|
| >gnl|CDD|239563 cd03481, TopoIIA_Trans_ScTopoIIA, 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 | Back alignment and domain information |
|---|
| >gnl|CDD|217081 pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase | Back alignment and domain information |
|---|
| >gnl|CDD|214643 smart00387, HATPase_c, Histidine kinase-like ATPases | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 555 | |||
| COG0187 | 635 | GyrB Type IIA topoisomerase (DNA gyrase/topo II, t | 100.0 | |
| PTZ00109 | 903 | DNA gyrase subunit b; Provisional | 100.0 | |
| TIGR01058 | 637 | parE_Gpos DNA topoisomerase IV, B subunit, Gram-po | 100.0 | |
| PRK05644 | 638 | gyrB DNA gyrase subunit B; Validated | 100.0 | |
| PRK05559 | 631 | DNA topoisomerase IV subunit B; Reviewed | 100.0 | |
| PRK14939 | 756 | gyrB DNA gyrase subunit B; Provisional | 100.0 | |
| smart00433 | 594 | TOP2c TopoisomeraseII. Eukaryotic DNA topoisomeras | 100.0 | |
| TIGR01055 | 625 | parE_Gneg DNA topoisomerase IV, B subunit, proteob | 100.0 | |
| TIGR01059 | 654 | gyrB DNA gyrase, B subunit. This model describes t | 100.0 | |
| PHA02569 | 602 | 39 DNA topoisomerase II large subunit; Provisional | 100.0 | |
| PTZ00108 | 1388 | DNA topoisomerase 2-like protein; Provisional | 100.0 | |
| PLN03128 | 1135 | DNA topoisomerase 2; Provisional | 100.0 | |
| PLN03237 | 1465 | DNA topoisomerase 2; Provisional | 100.0 | |
| KOG0355 | 842 | consensus DNA topoisomerase type II [Chromatin str | 100.0 | |
| cd03366 | 114 | TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisome | 100.0 | |
| cd01030 | 115 | TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisome | 100.0 | |
| cd03365 | 120 | TOPRIM_TopoIIA TOPRIM_TopoIIA: topoisomerase-prima | 100.0 | |
| cd00822 | 172 | TopoII_Trans_DNA_gyrase TopoIIA_Trans_DNA_gyrase: | 100.0 | |
| PF00204 | 173 | DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA | 100.0 | |
| cd03481 | 153 | TopoIIA_Trans_ScTopoIIA TopoIIA_Trans_ScTopoIIA: T | 99.97 | |
| PF00986 | 65 | DNA_gyraseB_C: DNA gyrase B subunit, carboxyl term | 99.94 | |
| PRK00095 | 617 | mutL DNA mismatch repair protein; Reviewed | 99.36 | |
| PF01751 | 100 | Toprim: Toprim domain; InterPro: IPR006171 This is | 99.18 | |
| cd00329 | 107 | TopoII_MutL_Trans MutL_Trans: transducer domain, h | 98.77 | |
| TIGR01052 | 488 | top6b DNA topoisomerase VI, B subunit. This model | 98.59 | |
| PRK04184 | 535 | DNA topoisomerase VI subunit B; Validated | 98.32 | |
| TIGR00585 | 312 | mutl DNA mismatch repair protein MutL. All protein | 98.15 | |
| PRK14939 | 756 | gyrB DNA gyrase subunit B; Provisional | 97.74 | |
| PRK14867 | 659 | DNA topoisomerase VI subunit B; Provisional | 97.23 | |
| COG1389 | 538 | DNA topoisomerase VI, subunit B [DNA replication, | 96.15 | |
| cd00188 | 83 | TOPRIM Topoisomerase-primase domain. This is a nuc | 92.64 | |
| PRK14868 | 795 | DNA topoisomerase VI subunit B; Provisional | 87.07 | |
| PRK05218 | 613 | heat shock protein 90; Provisional | 86.41 |
| >COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
Probab=100.00 E-value=4.3e-188 Score=1494.20 Aligned_cols=541 Identities=54% Similarity=0.916 Sum_probs=513.5
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEEeCCEEEEEEecCCcCCccceeeccCCCCCCCCceE
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTR 80 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~GT~ 80 (555)
+|||+||||||||++ +||+||||||||+|||||||+||+|+|+|+|++|+|+|++|+++++++++. ...++++||+
T Consensus 94 vI~T~LHAGGKFd~~--~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G~~~~~l~~ig--~~~~~~~GT~ 169 (635)
T COG0187 94 VIFTVLHAGGKFDND--SYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERGVPVTPLEVIG--STDTKKTGTK 169 (635)
T ss_pred EEEEeeccCcccCCC--ccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCCCcCCCceecc--cCCCCCCccE
Confidence 699999999999998 999999999999999999999999999999999999999999999988661 1235678999
Q ss_pred EEEEeCcccccccccCCHHHHHHHHHHHhhcCCCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCCc-eeE
Q 008738 81 IRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHD-VVG 159 (555)
Q Consensus 81 V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~~-~i~ 159 (555)
|+||||++||++ ..|++++|++|||++|||||||+|+|+|+|.... .. .|||++||++||++++.+++++++ +++
T Consensus 170 V~F~PD~~iF~~-~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~--~~-~~~y~~Gl~~yv~~l~~~k~~l~~~~~~ 245 (635)
T COG0187 170 VRFKPDPEIFGE-TEFDYEILKRRLRELAFLNKGVKITLTDERTGEE--KK-EFHYEGGLKDYVEYLNKGKTPLHEEIFY 245 (635)
T ss_pred EEEEcChHhcCC-cccCHHHHHHHHHHHhccCCCCEEEEEeccCCcc--cc-eeecccHHHHHHHHHhcCCCccccCcee
Confidence 999999999986 6899999999999999999999999999997521 12 599999999999999999999996 566
Q ss_pred EEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCCCCHhhhhcccEE
Q 008738 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTC 239 (555)
Q Consensus 160 ~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~i~~~dIregL~~ 239 (555)
+.++.+++.|||||||+ ++|+++++||||||+|++||||++||++||+++||+|+++++++|+++ ++++||||||++
T Consensus 246 ~~~~~~~~~vEvA~q~~-d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~--l~g~Diregl~a 322 (635)
T COG0187 246 FNGEKDGIAVEVALQWN-DGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGD--LTGDDIREGLTA 322 (635)
T ss_pred cccCccceEEEEEEEEe-cCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHHHhCcCcccC--CCHHHHhhccEE
Confidence 66777789999999999 899999999999999999999999999999999999999999988765 999999999999
Q ss_pred EEEEeecCCCCCCccccccCChhhhhhhhhhhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccC
Q 008738 240 IISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSS 319 (555)
Q Consensus 240 ~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakkar~~~~~k~~~~~~ 319 (555)
||||+||||+|+||||+||+|++++.+|++++++.|..||++||.+|+.|+++++.+++||+||++||+++|+|+++...
T Consensus 323 viSvki~~PqFegQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~aa~aR~aarkare~~R~k~~~~~~ 402 (635)
T COG0187 323 VISVKIPDPQFEGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKARELTRRKSALDIP 402 (635)
T ss_pred EEEEECCCCCcCcccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999988999
Q ss_pred CCCCCCCCCCCCCCCCceeEEeeccCCCccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHHHhcCCccCC
Q 008738 320 SLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGE 399 (555)
Q Consensus 320 ~lpgKL~dc~~~~~~~~eL~lvEGDSA~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~alG~~~~~~ 399 (555)
.|||||+||++++|++|||||||||||||||||||||+|||||||||||||||+|+.+||++|+||++|++|||||++ .
T Consensus 403 ~LpGKLadC~skd~~~~ELfiVEGDSAGGSAKqgRdR~~QAILPLRGKiLNVeka~~~kil~N~EI~~ii~AlG~g~~-~ 481 (635)
T COG0187 403 GLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIQTIITALGTGIG-K 481 (635)
T ss_pred CCCCcCcccccCCcccceEEEEecCCcchhhhhccCccceEEecccCcchhhhhccHhhhhhhHHHHHHHHHhCCCCC-C
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999994 5
Q ss_pred cCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhhcCcEEEecCCeEEEEeCCeEEEeeCHHHHHHHHHhCCC
Q 008738 400 DFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPS 479 (555)
Q Consensus 400 ~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~~g~v~~~~tPl~kv~~gk~~~~~~s~~e~~~~~~~~~~ 479 (555)
+||+++||||||||||||||||+|||+|||||||||||+||++||||+|+||||||++|+++.|+|||.|+++.+.++..
T Consensus 482 ~fd~~~LRY~kIiIMTDADvDGaHIrtLLlTfFyr~m~~LIe~G~vyiA~PPLYkv~~~k~~~Y~~~d~E~~~~~~~~~~ 561 (635)
T COG0187 482 DFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMPPLIENGHVYIAQPPLYKVKKGKKTFYAYDDEELEKLLERLGK 561 (635)
T ss_pred CCChhhCccCcEEEEecCCCChHHHHHHHHHHHHHHhHHHHHcCcEEEEcCceEEEEcCCceeEeCCHHHHHHHHHHhcc
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999988742
Q ss_pred CCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccccCCcCCCCC
Q 008738 480 NALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 555 (555)
Q Consensus 480 ~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~~~~~~~ld~ 555 (555)
.++|+||||||||||||+|||||||||++|+|.||+++|+++|+++|++|||+++++||+||++|+.++ .++||
T Consensus 562 ~~~~~IqRyKGLGEMnp~QLwETTmdP~~R~L~~V~i~da~~ad~~f~~LMGd~ve~Rr~fIe~na~~~--~~~di 635 (635)
T COG0187 562 KKGYEIQRYKGLGEMNPDQLWETTMDPETRRLLQVTIEDADEADEIFSTLMGDKVEPRRNFIEENALFV--ENLDI 635 (635)
T ss_pred cCCceeEeecccCCCCHHHHHHhccCccceeEEEEEcccHHHHHHHHHHHcCCCchHHHHHHHHHhhhh--hhccC
Confidence 258999999999999999999999999999999999999999999999999999999999999999864 55665
|
|
| >PTZ00109 DNA gyrase subunit b; Provisional | Back alignment and domain information |
|---|
| >TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive | Back alignment and domain information |
|---|
| >PRK05644 gyrB DNA gyrase subunit B; Validated | Back alignment and domain information |
|---|
| >PRK05559 DNA topoisomerase IV subunit B; Reviewed | Back alignment and domain information |
|---|
| >PRK14939 gyrB DNA gyrase subunit B; Provisional | Back alignment and domain information |
|---|
| >smart00433 TOP2c TopoisomeraseII | Back alignment and domain information |
|---|
| >TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial | Back alignment and domain information |
|---|
| >TIGR01059 gyrB DNA gyrase, B subunit | Back alignment and domain information |
|---|
| >PHA02569 39 DNA topoisomerase II large subunit; Provisional | Back alignment and domain information |
|---|
| >PTZ00108 DNA topoisomerase 2-like protein; Provisional | Back alignment and domain information |
|---|
| >PLN03128 DNA topoisomerase 2; Provisional | Back alignment and domain information |
|---|
| >PLN03237 DNA topoisomerase 2; Provisional | Back alignment and domain information |
|---|
| >KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics] | Back alignment and domain information |
|---|
| >cd03366 TOPRIM_TopoIIA_GyrB 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 | Back alignment and domain information |
|---|
| >cd01030 TOPRIM_TopoIIA_like 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 | Back alignment and domain information |
|---|
| >cd03365 TOPRIM_TopoIIA 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 | Back alignment and domain information |
|---|
| >cd00822 TopoII_Trans_DNA_gyrase 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 | Back alignment and domain information |
|---|
| >PF00204 DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA topoisomerases regulate the number of topological links between two DNA strands (i | Back alignment and domain information |
|---|
| >cd03481 TopoIIA_Trans_ScTopoIIA 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 | Back alignment and domain information |
|---|
| >PF00986 DNA_gyraseB_C: DNA gyrase B subunit, carboxyl terminus The Prosite motif does not match this Pfam entry | Back alignment and domain information |
|---|
| >PRK00095 mutL DNA mismatch repair protein; Reviewed | Back alignment and domain information |
|---|
| >PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase | Back alignment and domain information |
|---|
| >cd00329 TopoII_MutL_Trans 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 | Back alignment and domain information |
|---|
| >TIGR01052 top6b DNA topoisomerase VI, B subunit | Back alignment and domain information |
|---|
| >PRK04184 DNA topoisomerase VI subunit B; Validated | Back alignment and domain information |
|---|
| >TIGR00585 mutl DNA mismatch repair protein MutL | Back alignment and domain information |
|---|
| >PRK14939 gyrB DNA gyrase subunit B; Provisional | Back alignment and domain information |
|---|
| >PRK14867 DNA topoisomerase VI subunit B; Provisional | Back alignment and domain information |
|---|
| >COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >cd00188 TOPRIM Topoisomerase-primase domain | Back alignment and domain information |
|---|
| >PRK14868 DNA topoisomerase VI subunit B; Provisional | Back alignment and domain information |
|---|
| >PRK05218 heat shock protein 90; Provisional | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 555 | ||||
| 2xco_A | 726 | The 3.1a Crystal Structure Of The Catalytic Core (B | 3e-75 | ||
| 2xcr_B | 726 | The 3.5a Crystal Structure Of The Catalytic Core (B | 4e-75 | ||
| 3foe_C | 268 | Structural Insight Into The Quinolone-Dna Cleavage | 2e-63 | ||
| 2xcs_B | 692 | The 2.1a Crystal Structure Of S. Aureus Gyrase Comp | 3e-60 | ||
| 2xkk_A | 767 | Crystal Structure Of Moxifloxacin, Dna, And A. Baum | 9e-54 | ||
| 2xkj_E | 767 | Crystal Structure Of Catalytic Core Of A. Baumannii | 1e-53 | ||
| 3ig0_A | 242 | Crystal Structure Of The Second Part Of The Mycobac | 4e-50 | ||
| 2zjt_A | 247 | Crystal Structure Of Dna Gyrase B' Domain Sheds Lig | 5e-50 | ||
| 3nuh_B | 420 | A Domain Insertion In E. Coli Gyrb Adopts A Novel F | 5e-48 | ||
| 3nuh_B | 420 | A Domain Insertion In E. Coli Gyrb Adopts A Novel F | 5e-11 | ||
| 1ei1_A | 391 | Dimerization Of E. Coli Dna Gyrase B Provides A Str | 7e-47 | ||
| 1kij_A | 390 | Crystal Structure Of The 43k Atpase Domain Of Therm | 8e-32 | ||
| 3cwv_A | 369 | Crystal Structure Of B-Subunit Of The Dna Gyrase Fr | 1e-24 | ||
| 4fm9_A | 763 | Human Topoisomerase Ii Alpha Bound To Dna Length = | 3e-22 | ||
| 3qx3_A | 803 | Human Topoisomerase Iibeta In Complex With Dna And | 2e-21 | ||
| 4hxz_A | 390 | Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To | 3e-21 | ||
| 3lnu_A | 408 | Crystal Structure Of Pare Subunit Length = 408 | 1e-19 | ||
| 1s16_A | 390 | Crystal Structure Of E. Coli Topoisomerase Iv Pare | 2e-19 | ||
| 4gee_A | 215 | Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To | 3e-15 | ||
| 3ttz_A | 198 | Crystal Structure Of A Topoisomerase Atpase Inhibit | 1e-14 | ||
| 3l4j_A | 722 | Topoisomerase Ii-Dna Cleavage Complex, Apo Length = | 1e-13 | ||
| 1bgw_A | 793 | Topoisomerase Residues 410-1202 Length = 793 | 1e-13 | ||
| 2rgr_A | 759 | Topoisomerase Iia Bound To G-segment Dna Length = 7 | 1e-13 | ||
| 3g75_A | 184 | Crystal Structure Of Staphylococcus Aureus Gyrase B | 5e-13 | ||
| 4gfh_A | 1103 | Topoisomerase Ii-Dna-Amppnp Complex Length = 1103 | 5e-13 | ||
| 4gfh_F | 1099 | Topoisomerase Ii-Dna-Amppnp Complex Length = 1099 | 1e-12 | ||
| 4hyp_A | 215 | Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To | 2e-12 | ||
| 4duh_A | 220 | Crystal Structure Of 24 Kda Domain Of E. Coli Dna G | 2e-12 | ||
| 1kzn_A | 205 | Crystal Structure Of E. Coli 24kda Domain In Comple | 2e-12 | ||
| 3g7e_A | 203 | Crystal Structure Of E. Coli Gyrase B Co-Complexed | 4e-12 | ||
| 1aj6_A | 219 | Novobiocin-resistant Mutant (r136h) Of The N-termin | 1e-11 | ||
| 4em7_A | 226 | Crystal Structure Of A Topoisomerase Atp Inhibitor | 3e-11 | ||
| 4b6c_A | 196 | Structure Of The M. Smegmatis Gyrb Atpase Domain In | 1e-10 | ||
| 4hz5_A | 216 | Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To | 6e-10 | ||
| 4hz0_A | 213 | Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To | 7e-06 | ||
| 3fv5_A | 201 | Crystal Structure Of E. Coli Topoisomerase Iv Co-Co | 7e-06 | ||
| 1s14_A | 194 | Crystal Structure Of Escherichia Coli Topoisomerase | 9e-06 |
| >pdb|2XCO|A Chain A, The 3.1a Crystal Structure Of The Catalytic Core (B'a' Region) Of Staphylococcus Aureus Dna Gyrase Length = 726 | Back alignment and structure |
|
| >pdb|2XCR|B Chain B, The 3.5a Crystal Structure Of The Catalytic Core (B'a' Region) Of Staphylococcus Aureus Dna Gyrase Complexed With Gsk299423 And Dna Length = 726 | Back alignment and structure |
| >pdb|3FOE|C Chain C, Structural Insight Into The Quinolone-Dna Cleavage Complex Of Type Iia Topoisomerases Length = 268 | Back alignment and structure |
| >pdb|2XCS|B Chain B, The 2.1a Crystal Structure Of S. Aureus Gyrase Complex With Gsk299423 And Dna Length = 692 | Back alignment and structure |
| >pdb|2XKK|A Chain A, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii Topo Iv (Pare-Parc Fusion Truncate) Length = 767 | Back alignment and structure |
| >pdb|2XKJ|E Chain E, Crystal Structure Of Catalytic Core Of A. Baumannii Topo Iv (Pare-Parc Fusion Truncate) Length = 767 | Back alignment and structure |
| >pdb|3IG0|A Chain A, Crystal Structure Of The Second Part Of The Mycobacterium Tuberculosis Dna Gyrase Reaction Core: The Toprim Domain At 2.1 A Resolution Length = 242 | Back alignment and structure |
| >pdb|2ZJT|A Chain A, Crystal Structure Of Dna Gyrase B' Domain Sheds Lights On The Mechanism For T-Segment Navigation Length = 247 | Back alignment and structure |
| >pdb|3NUH|B Chain B, A Domain Insertion In E. Coli Gyrb Adopts A Novel Fold That Plays A Critical Role In Gyrase Function Length = 420 | Back alignment and structure |
| >pdb|3NUH|B Chain B, A Domain Insertion In E. Coli Gyrb Adopts A Novel Fold That Plays A Critical Role In Gyrase Function Length = 420 | Back alignment and structure |
| >pdb|1EI1|A Chain A, Dimerization Of E. Coli Dna Gyrase B Provides A Structural Mechanism For Activating The Atpase Catalytic Center Length = 391 | Back alignment and structure |
| >pdb|1KIJ|A Chain A, Crystal Structure Of The 43k Atpase Domain Of Thermus Thermophilus Gyrase B In Complex With Novobiocin Length = 390 | Back alignment and structure |
| >pdb|3CWV|A Chain A, Crystal Structure Of B-Subunit Of The Dna Gyrase From Myxococcus Xanthus Length = 369 | Back alignment and structure |
| >pdb|4FM9|A Chain A, Human Topoisomerase Ii Alpha Bound To Dna Length = 763 | Back alignment and structure |
| >pdb|3QX3|A Chain A, Human Topoisomerase Iibeta In Complex With Dna And Etoposide Length = 803 | Back alignment and structure |
| >pdb|4HXZ|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 390 | Back alignment and structure |
| >pdb|3LNU|A Chain A, Crystal Structure Of Pare Subunit Length = 408 | Back alignment and structure |
| >pdb|1S16|A Chain A, Crystal Structure Of E. Coli Topoisomerase Iv Pare 43kda Subunit Complexed With Adpnp Length = 390 | Back alignment and structure |
| >pdb|4GEE|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 215 | Back alignment and structure |
| >pdb|3TTZ|A Chain A, Crystal Structure Of A Topoisomerase Atpase Inhibitor Length = 198 | Back alignment and structure |
| >pdb|3L4J|A Chain A, Topoisomerase Ii-Dna Cleavage Complex, Apo Length = 722 | Back alignment and structure |
| >pdb|1BGW|A Chain A, Topoisomerase Residues 410-1202 Length = 793 | Back alignment and structure |
| >pdb|2RGR|A Chain A, Topoisomerase Iia Bound To G-segment Dna Length = 759 | Back alignment and structure |
| >pdb|3G75|A Chain A, Crystal Structure Of Staphylococcus Aureus Gyrase B Co- Complexed With Inhibitor Length = 184 | Back alignment and structure |
| >pdb|4HYP|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 215 | Back alignment and structure |
| >pdb|4DUH|A Chain A, Crystal Structure Of 24 Kda Domain Of E. Coli Dna Gyrase B In Complex With Small Molecule Inhibitor Length = 220 | Back alignment and structure |
| >pdb|1KZN|A Chain A, Crystal Structure Of E. Coli 24kda Domain In Complex With Clorobiocin Length = 205 | Back alignment and structure |
| >pdb|3G7E|A Chain A, Crystal Structure Of E. Coli Gyrase B Co-Complexed With Inhibitor Length = 203 | Back alignment and structure |
| >pdb|1AJ6|A Chain A, Novobiocin-resistant Mutant (r136h) Of The N-terminal 24 Kda Fragment Of Dna Gyrase B Complexed With Novobiocin At 2.3 Angstroms Resolution Length = 219 | Back alignment and structure |
| >pdb|4EM7|A Chain A, Crystal Structure Of A Topoisomerase Atp Inhibitor Length = 226 | Back alignment and structure |
| >pdb|4B6C|A Chain A, Structure Of The M. Smegmatis Gyrb Atpase Domain In Complex With An Aminopyrazinamide Length = 196 | Back alignment and structure |
| >pdb|4HZ5|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity Length = 216 | Back alignment and structure |
| >pdb|4HZ0|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 213 | Back alignment and structure |
| >pdb|3FV5|A Chain A, Crystal Structure Of E. Coli Topoisomerase Iv Co-Complexed With Inhibitor Length = 201 | Back alignment and structure |
| >pdb|1S14|A Chain A, Crystal Structure Of Escherichia Coli Topoisomerase Iv Pare 24kda Subunit Length = 194 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase, protein-DNA cleavage complex; HET: DNA LFX; 2.90A {Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C* 3ksa_C* 3ksb_C* 3ltn_C* 3rad_C* 3rae_C* 3raf_C* Length = 268 | Back alignment and structure |
|---|
Score = 439 bits (1131), Expect = e-153
Identities = 120/261 (45%), Positives = 163/261 (62%), Gaps = 7/261 (2%)
Query: 295 SALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGR 354
+ D K+ L GKL S P ++E+++VEGDSAGGSAKQGR
Sbjct: 7 HHHHHHSSGHIDDDDKHMKNKKDKGLLSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGR 66
Query: 355 DRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIIL 414
DR+FQAILPLRGK++N + A + KNEEI +I +G GV G DF E Y KIII+
Sbjct: 67 DRKFQAILPLRGKVINTAKAKMADILKNEEINTMIYTIGAGV-GADFSIEDANYDKIIIM 125
Query: 415 TDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVPPLYKVERGK----QVQYCYDDAEL 470
TDAD DGAHI+TLLLTFFYRY + L + G +Y+ +PPLYK+ +GK +V Y + D EL
Sbjct: 126 TDADTDGAHIQTLLLTFFYRYMRPLVEAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGEL 185
Query: 471 KKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLM 530
++++ F ++QR+KGLGEM QLWETT+NPE R L ++ IED A A + LM
Sbjct: 186 EELRKQFGKG--ATLQRYKGLGEMNADQLWETTMNPETRTLIRVTIEDLARAERRVNVLM 243
Query: 531 GARVDTRKELIQNAANLVNLD 551
G +V+ R++ I++ +
Sbjct: 244 GDKVEPRRKWIEDNVKFTLEE 264
|
| >1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex, isomerase; HET: DNA NOV; 2.30A {Thermus thermophilus} SCOP: d.14.1.3 d.122.1.2 Length = 390 | Back alignment and structure |
|---|
| >1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP; 2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 Length = 391 | Back alignment and structure |
|---|
| >3m4i_A DNA gyrase subunit B; GYRB, toprim, type II topoisomerase, tuberculosi quinolone binding site, DNA binding site, ATP-binding; HET: DNA; 1.95A {Mycobacterium tuberculosis} PDB: 3ig0_A* 2zjt_A* Length = 242 | Back alignment and structure |
|---|
| >1s16_A Topoisomerase IV subunit B; two-domain protein complexed with ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 Length = 390 | Back alignment and structure |
|---|
| >3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB: 3lps_A* Length = 408 | Back alignment and structure |
|---|
| >3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown function, B-subunit binding, isomerase, nucleotide-binding, topoisomerase; HET: DNA; 1.95A {Myxococcus xanthus} Length = 369 | Back alignment and structure |
|---|
| >3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization, isomera; HET: DNA; 3.10A {Escherichia coli} Length = 420 | Back alignment and structure |
|---|
| >3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization, isomera; HET: DNA; 3.10A {Escherichia coli} Length = 420 | Back alignment and structure |
|---|
| >1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A {Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB: 1qzr_A* Length = 418 | Back alignment and structure |
|---|
| >1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo sapiens} PDB: 1zxn_A* Length = 400 | Back alignment and structure |
|---|
| >2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A* Length = 767 | Back alignment and structure |
|---|
| >3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain, coiled-coil domain, DNA and cleavage, nucleus; HET: DNA EVP; 2.16A {Homo sapiens} Length = 803 | Back alignment and structure |
|---|
| >2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A* Length = 692 | Back alignment and structure |
|---|
| >4emv_A DNA topoisomerase IV, B subunit; protein-inhibitor complex, ATP binding, structure-based drug antimicrobial, virtual screen; HET: DNA 0R9; 1.70A {Streptococcus pneumoniae GA47373} PDB: 4em7_A* Length = 226 | Back alignment and structure |
|---|
| >4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial, DNA gyrase B, GY isomerase-isomerase inhibitor complex; HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A* 1kzn_A* 3g7e_A* Length = 220 | Back alignment and structure |
|---|
| >3fv5_A DNA topoisomerase 4 subunit B; topoisomerase IV B subunit complex, antibiotic resistance, ATP-binding, nucleotide-binding; HET: DNA 1EU; 1.80A {Escherichia coli} PDB: 1s14_A* Length = 201 | Back alignment and structure |
|---|
| >3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently linked comple supercoiling; HET: DNA PTR TSP; 2.48A {Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A 2rgr_A* Length = 757 | Back alignment and structure |
|---|
| >3ttz_A DNA gyrase subunit B; protein-inhibitor complex, ATP-binding, structure-based drug antimicrobial, isomerase-isomerase inhibitor complex; HET: DNA 07N; 1.63A {Staphylococcus aureus} PDB: 3u2d_A* 3u2k_A* 3g75_A* 3g7b_A* Length = 198 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 555 | |||
| 4gfh_A | 1177 | DNA topoisomerase 2; topoisomerase, protein-DNA co | 100.0 | |
| 3k9f_C | 268 | DNA topoisomerase 4 subunit B; quinolone, topoisom | 100.0 | |
| 3nuh_B | 420 | DNA gyrase subunit B; topoisomerase, supercoiling, | 100.0 | |
| 3m4i_A | 242 | DNA gyrase subunit B; GYRB, toprim, type II topois | 100.0 | |
| 2xkj_E | 767 | Topoisomerase IV; type IIA topoisomerase; 2.20A {A | 100.0 | |
| 3lnu_A | 408 | Topoisomerase IV subunit B; PARE, ATP-binding, nuc | 100.0 | |
| 1ei1_A | 391 | DNA gyrase B, GYRB; ATPase domain, dimer, isomeras | 100.0 | |
| 3l4j_A | 757 | DNA topoisomerase 2; topoisomerase, protein-DNA co | 100.0 | |
| 3qx3_A | 803 | DNA topoisomerase 2-beta; toprim domain, winged-he | 100.0 | |
| 1s16_A | 390 | Topoisomerase IV subunit B; two-domain protein com | 100.0 | |
| 2xcs_B | 692 | DNA gyrase subunit B, DNA gyrase subunit A; isomer | 100.0 | |
| 1kij_A | 390 | DNA gyrase subunit B; topoisomerase, gyrase B-coum | 100.0 | |
| 1pvg_A | 418 | DNA topoisomerase II; GHKL ATPase domain; HET: DNA | 100.0 | |
| 1zxm_A | 400 | TOPO IIA ATPase, DNA topoisomerase II, alpha isozy | 100.0 | |
| 3cwv_A | 369 | DNA gyrase, B subunit, truncated; structural genom | 100.0 | |
| 4duh_A | 220 | DNA gyrase subunit B; structure-based drug design, | 100.0 | |
| 4emv_A | 226 | DNA topoisomerase IV, B subunit; protein-inhibitor | 100.0 | |
| 3fv5_A | 201 | DNA topoisomerase 4 subunit B; topoisomerase IV B | 99.95 | |
| 2q2e_B | 621 | Type 2 DNA topoisomerase 6 subunit B; DNA-binding, | 99.93 | |
| 3ttz_A | 198 | DNA gyrase subunit B; protein-inhibitor complex, A | 99.9 | |
| 2zbk_B | 530 | Type 2 DNA topoisomerase 6 subunit B; DNA binding | 99.33 | |
| 1b63_A | 333 | MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A | 99.32 | |
| 3na3_A | 348 | DNA mismatch repair protein MLH1; MUTL protein hom | 99.23 | |
| 3h4l_A | 367 | DNA mismatch repair protein PMS1; ATP binding, DNA | 99.12 | |
| 1h7s_A | 365 | PMS1 protein homolog 2; DNA repair, GHL ATPase, mi | 98.82 | |
| 1mu5_A | 471 | Type II DNA topoisomerase VI subunit B; GHKL ATPas | 98.57 | |
| 1yc1_A | 264 | HSP 86, heat shock protein HSP 90-alpha; cell-cycl | 80.42 |
| >4gfh_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, DNA supercoiling, DNA replication; HET: DNA PTR TSP ANP; 4.41A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
Probab=100.00 E-value=2.7e-143 Score=1257.42 Aligned_cols=520 Identities=23% Similarity=0.332 Sum_probs=417.2
Q ss_pred CEEeeecCCCCCCCCCCceeeccccCCcchhhhhhhcceeEEEEE--eCCEEEEEEecCCcCCccceeeccCCCCCCCCc
Q 008738 1 MIVTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVW--RDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQG 78 (555)
Q Consensus 1 ~v~t~lhaGgkF~~~~~~yk~sGGlhGvGasvvNalS~~f~V~v~--r~gk~y~q~f~~G~~~~~~~~~~~~~~~~~~~G 78 (555)
||||+||||||||++ +||+||||||||+|||||||++|.|||. |+|+.|+|+|++|+++.+++.+ .....+++|
T Consensus 119 vv~t~LhAGgKFd~~--~ykvSGGLHGVG~svVNALS~~~~vev~~~r~Gk~y~q~f~~g~~~~~~~~i--~~~~~~~tG 194 (1177)
T 4gfh_A 119 MIFGHLLTSSNYDDD--EKKVTGGRNGYGAKLCNIFSTEFILETADLNVGQKYVQKWENNMSICHPPKI--TSYKKGPSY 194 (1177)
T ss_dssp HHHHSSSEESCCCCS--SCCCCSCCSSCHHHHHHHTEEEEEEEEEETTTTEEEEEEEETTTTEECCCEE--EECCSSCCC
T ss_pred eeccccccccCcCCC--CCeEeccCCChhhhHHhhcCCceEEEEEEEcCCEEEEEEEECCcccCCCCee--ecCCCCCCc
Confidence 589999999999998 9999999999999999999999999986 8999999999999999877655 122345789
Q ss_pred eEEEEEeCcccccccccCCHHHHHHHHHHHhhcC---CCcEEEEeecCCCCCCCcceeEeccccHHHHHHHHhcCCCCCC
Q 008738 79 TRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLN---PKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH 155 (555)
Q Consensus 79 T~V~F~PD~~iF~~~~~~~~~~l~~Rl~elA~Ln---~gl~I~l~der~~~~~~~~~~f~~~~Gl~dyv~~l~~~~~~~~ 155 (555)
|+|+||||++||++ ..|+++++..|++++|+|| +++.+.+++++. +.++|++|+.+|++.++..+..++
T Consensus 195 T~V~F~PD~~iF~~-~~~~~d~l~~~~r~~~~l~~~~~~~~~~~~g~~~-------~~~~f~~gi~~y~~~l~~~~~~~~ 266 (1177)
T 4gfh_A 195 TKVTFKPDLTRFGM-KELDNDILGVMRRRVYDINGSVRDINVYLNGKSL-------KIRNFKNYVELYLKSLEKKRQLDN 266 (1177)
T ss_dssp EEEEEEECHHHHTC-SSCCHHHHHHHHHHHHHHHHHSSSCEEEESSCBC-------CCCSHHHHHGGGTTTC--------
T ss_pred eEEEEEeCHHhcCC-cEeCHHHHHHHHHHHHHhcCCCceEEEEecCCee-------EEeeccchhhhhhhhhccceeccc
Confidence 99999999999985 5799999999999988887 457789988763 457889999999987766543222
Q ss_pred --------ceeEEEEeecceEEEEEEeecCCCCCceeeeeeCccccCCCCcchHHHHHHHHHHHHHHHHhcccCCCCCCC
Q 008738 156 --------DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDIS 227 (555)
Q Consensus 156 --------~~i~~~~~~~~~~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~~~in~~~kk~~~~k~k~~~ 227 (555)
+...+..+..+.+||||++|+ +++ ++++||||+|+|++|||||+||++||+++||+|+++.+ +.+
T Consensus 267 ~~~~~~~~~~~~~~~e~~~~~~eva~~~~-d~~-~~~~SFvN~I~T~~GGTHv~gfr~altr~in~~~~k~~-----~~~ 339 (1177)
T 4gfh_A 267 GEDGAAKSDIPTILYERINNRWEVAFAVS-DIS-FQQISFVNSIATTMGGTHVNYITDQIVKKISEILKKKK-----KKS 339 (1177)
T ss_dssp ---------CCSCEEEEEETTEEEEEEEC-SSS-CEEEEEESSCEETTEEHHHHHHHHHHHHHHHHHHHHHS-----SSC
T ss_pred cccccccCCCceEEEEeccceEEEeeccc-CCc-ceeeeeeeeeecCCCchHHHHHHHHHHHHHHHHhhhhc-----ccc
Confidence 112233344566799999999 444 34689999999999999999999999999999987654 346
Q ss_pred CCHhhhhcccEEEEEEeecCCCCCCccccccCChhhhhhhhhhhH-HHHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHH
Q 008738 228 LSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQ-EYLTEYLELHPDVLDSILSKSLSALKAALAAKRA 306 (555)
Q Consensus 228 i~~~dIregL~~~vsv~i~nP~FegQTKekL~n~~v~~~v~~~v~-~~l~~~l~~n~~~~~~i~~~~~~~~~ar~aakka 306 (555)
++++|||+||++||||+|+||+|+||||++|+|+.....+...+. +.+..++ +..++ ++++.+++++++++++
T Consensus 340 ~~~~DIregl~avISvki~~PqFegQTK~kL~s~~~~~~~~~~~~~~~~~~~~--~~~i~----~~~~~~a~~~~~~~~~ 413 (1177)
T 4gfh_A 340 VKSFQIKNNMFIFINCLIENPAFTSQTKEQLTTRVKDFGSRCEIPLEYINKIM--KTDLA----TRMFEIADANEENALK 413 (1177)
T ss_dssp CCHHHHHTTEEEEEEECCSSCCBSSTTCCEECCCGGGSSSCCCCCHHHHHHHT--TSHHH----HHHHHHHTTCC-----
T ss_pred CCHHHHhCCceEEEEeeeccCccccchhhhhcCchhcceeeccchHHHhhhhh--hHHHH----HHHHHHHHHHHHHHHH
Confidence 899999999999999999999999999999999865544433332 2233332 22344 4444444444443334
Q ss_pred HHHHhhccccccCCCCCCCCCCC---CCCCCCceeEEeeccCCCccccccC---CCCceeecccCcccccccccCHHHHh
Q 008738 307 RDLVRQKSVLRSSSLPGKLADCS---STTPEESEIFIVEGDSAGGSAKQGR---DRRFQAILPLRGKILNVERKDEAAMY 380 (555)
Q Consensus 307 r~~~~~k~~~~~~~lpgKL~dc~---~~~~~~~eL~lvEGDSA~gsa~~gR---dr~~qai~PLrGKiLNv~ka~~~ki~ 380 (555)
+...++|+.+ ..+ +||+||+ +++|++|||||||||||||||++|| +|+||||||||||||||++|+.++|+
T Consensus 414 k~~~~~k~~~--~~~-~KL~d~~~~~skd~~~~ELfiVEGDSAgGsAk~Grak~~Rd~QAIlPLRGKiLNv~ka~~~kil 490 (1177)
T 4gfh_A 414 KSDGTRKSRI--TNY-PKLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRDYYGCYPLRGKMLNVREASADQIL 490 (1177)
T ss_dssp -------CCC--CSC-TTCBCCTTTTTTTTTTCEEEEEEHHHHHHHHHHHHHHHCSTTEEEEEECSSCCCCTTCCHHHHH
T ss_pred hhhhhcchhh--ccc-cccccccccCCCCccceEEEEecCCchhhhHhhcccccCcccEEecccCceechhhhhHHHHHh
Confidence 4444444432 223 4999987 6899999999999999999999999 89999999999999999999999999
Q ss_pred hCHhHHHHHHHhcCCccCCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhh-cCcEEEecCCeEEEEeC-
Q 008738 381 KNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIYVGVPPLYKVERG- 458 (555)
Q Consensus 381 ~N~Ei~~li~alG~~~~~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~-~g~v~~~~tPl~kv~~g- 458 (555)
+|+||++|++|||||++.+.+|+++||||||||||||||||+|||||||||||||||+||+ +||||+|+||||||+.|
T Consensus 491 ~N~EI~~ii~alG~g~g~~~~d~~~LRY~KIiIMTDADvDGsHIrtLLltfF~r~~p~Lie~~G~vyia~pPLykv~~~k 570 (1177)
T 4gfh_A 491 KNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLIINFLESSFPGLLDIQGFLLEFITPIIKVSITK 570 (1177)
T ss_dssp HCHHHHHHHHHTTCCCSSCCCCGGGSSCSEEEEECCSSHHHHHHHHHHHHHHHHHSTTSTTSTTCEEEECCCSEEEEECS
T ss_pred hcHHHHHHHHHhCCCcCcccCccccCCCCeEEEeecCCCCcchHHHHHHHHHHHhChhhEeeCCEEEEEecceEEEEEec
Confidence 9999999999999999544459999999999999999999999999999999999999999 99999999999999865
Q ss_pred --CeEEEeeCHHHHHHHHHhCCCCCCccceeeeccccCChhhHHhhhcCCCcee--EEeeccccHHHHHHHHHHhcCCCc
Q 008738 459 --KQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRM--LKQLVIEDAAEANVVFSSLMGARV 534 (555)
Q Consensus 459 --k~~~~~~s~~e~~~~~~~~~~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~--l~~v~~~d~~~~~~~f~~lmg~~~ 534 (555)
|..+|||+++|+++|++..+..++|+||||||||||+|+|||||||||++|+ +.+++++|++.++++ |||+++
T Consensus 571 ~~k~~~~~y~~~e~e~~~~~~~~~~~~~iqryKGLGEm~~~ql~Ett~~~d~~~~~~~~v~~~d~~~~d~~---f~~~~~ 647 (1177)
T 4gfh_A 571 PTKNTIAFYNMPDYEKWREEESHKFTWKQKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLA---FSKKKA 647 (1177)
T ss_dssp SSCCEEEESSHHHHHHHHHHTGGGSCEEEEEC----CCCHHHHHHHHHTCTTTEEEEECCCTTTHHHHHHH---HCGGGH
T ss_pred CCcceEEEechHHHHHHHHHhcCCCCcceeecccCCcccHHHHHHHHhCcccceEEEEEcccccHHHHHHH---Hhccch
Confidence 4578999999999999887655679999999999999999999888887554 556777777665555 479999
Q ss_pred hHHHHHHHhccccCCcC
Q 008738 535 DTRKELIQNAANLVNLD 551 (555)
Q Consensus 535 ~~Rk~~i~~~~~~~~~~ 551 (555)
++||+||++|++...+|
T Consensus 648 ~~RkewI~~~~~~~~~d 664 (1177)
T 4gfh_A 648 DDRKEWLRQYEPGTVLD 664 (1177)
T ss_dssp HHHHHHHHHCCTTCCCC
T ss_pred hhHHHHHHhcCcccccc
Confidence 99999999999986554
|
| >3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase, protein-DNA cleavage complex; HET: DNA LFX; 2.90A {Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C* 3ksa_C* 3ksb_C* 3ltn_C* 3rad_C* 3rae_C* 3raf_C* | Back alignment and structure |
|---|
| >3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization, isomera; HET: DNA; 3.10A {Escherichia coli} | Back alignment and structure |
|---|
| >3m4i_A DNA gyrase subunit B; GYRB, toprim, type II topoisomerase, tuberculosi quinolone binding site, DNA binding site, ATP-binding; HET: DNA; 1.95A {Mycobacterium tuberculosis} PDB: 3ig0_A* 2zjt_A* | Back alignment and structure |
|---|
| >2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A* | Back alignment and structure |
|---|
| >3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB: 3lps_A* | Back alignment and structure |
|---|
| >1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP; 2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 | Back alignment and structure |
|---|
| >3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently linked comple supercoiling; HET: DNA PTR TSP; 2.48A {Saccharomyces cerevisiae} SCOP: e.11.1.1 PDB: 3l4k_A* 1bjt_A 1bgw_A 2rgr_A* | Back alignment and structure |
|---|
| >3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain, coiled-coil domain, DNA and cleavage, nucleus; HET: DNA EVP; 2.16A {Homo sapiens} PDB: 4fm9_A* | Back alignment and structure |
|---|
| >1s16_A Topoisomerase IV subunit B; two-domain protein complexed with ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 | Back alignment and structure |
|---|
| >2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A* | Back alignment and structure |
|---|
| >1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex, isomerase; HET: DNA NOV; 2.30A {Thermus thermophilus} SCOP: d.14.1.3 d.122.1.2 | Back alignment and structure |
|---|
| >1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A {Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB: 1qzr_A* | Back alignment and structure |
|---|
| >1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo sapiens} PDB: 1zxn_A* | Back alignment and structure |
|---|
| >3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown function, B-subunit binding, isomerase, nucleotide-binding, topoisomerase; HET: DNA; 1.95A {Myxococcus xanthus} | Back alignment and structure |
|---|
| >4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial, DNA gyrase B, GY isomerase-isomerase inhibitor complex; HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A* 1kzn_A* 3g7e_A* | Back alignment and structure |
|---|
| >4emv_A DNA topoisomerase IV, B subunit; protein-inhibitor complex, ATP binding, structure-based drug antimicrobial, virtual screen; HET: DNA 0R9; 1.70A {Streptococcus pneumoniae GA47373} PDB: 4em7_A* | Back alignment and structure |
|---|
| >3fv5_A DNA topoisomerase 4 subunit B; topoisomerase IV B subunit complex, antibiotic resistance, ATP-binding, nucleotide-binding; HET: DNA 1EU; 1.80A {Escherichia coli} PDB: 1s14_A* | Back alignment and structure |
|---|
| >2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei} | Back alignment and structure |
|---|
| >3ttz_A DNA gyrase subunit B; protein-inhibitor complex, ATP-binding, structure-based drug antimicrobial, isomerase-isomerase inhibitor complex; HET: DNA 07N; 1.63A {Staphylococcus aureus} PDB: 3u2d_A* 3u2k_A* 3g75_A* 3g7b_A* | Back alignment and structure |
|---|
| >2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} | Back alignment and structure |
|---|
| >1b63_A MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A {Escherichia coli K12} SCOP: d.14.1.3 d.122.1.2 PDB: 1nhh_A* 1nhi_A* 1bkn_A 1nhj_A* 1b62_A* | Back alignment and structure |
|---|
| >3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA damag repair, structural genomics consortium, SGC, protein bindin; HET: DNA ATP; 2.50A {Homo sapiens} | Back alignment and structure |
|---|
| >3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA damage, nucleus, phosphop DNA binding protein, protein binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair, HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2 PDB: 1h7u_A* 1ea6_A* | Back alignment and structure |
|---|
| >1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A* | Back alignment and structure |
|---|
| >1yc1_A HSP 86, heat shock protein HSP 90-alpha; cell-cycle, cancer, drug design, cell cycle; HET: 4BC; 1.70A {Homo sapiens} SCOP: d.122.1.1 PDB: 1yc3_A* 1yc4_A* | Back alignment and structure |
|---|
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 555 | ||||
| d1bjta_ | 760 | e.11.1.1 (A:) DNA topoisomerase II, C-terminal fra | 3e-74 | |
| d1ei1a1 | 172 | d.14.1.3 (A:221-392) DNA gyrase B {Escherichia col | 5e-43 | |
| d1kija1 | 172 | d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermop | 3e-42 | |
| d1s16a1 | 167 | d.14.1.3 (A:1217-1383) Topoisomerase IV subunit B | 3e-41 | |
| d1ei1a2 | 219 | d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli | 4e-30 | |
| d1s14a_ | 168 | d.122.1.2 (A:) Topoisomerase IV subunit B {Escheri | 2e-29 | |
| d1kija2 | 212 | d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermoph | 1e-22 | |
| d1pvga1 | 161 | d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's | 3e-20 | |
| d1pvga2 | 239 | d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's | 1e-16 |
| >d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 760 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: Type II DNA topoisomerase superfamily: Type II DNA topoisomerase family: Type II DNA topoisomerase domain: DNA topoisomerase II, C-terminal fragment (residues 410-1202) species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Score = 248 bits (635), Expect = 3e-74
Identities = 63/241 (26%), Positives = 111/241 (46%), Gaps = 17/241 (7%)
Query: 317 RSSSLPG--KLADCS---STTPEESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRG 366
R S + KL D + + + + + EGDSA G A GRD + PLRG
Sbjct: 1 RKSRITNYPKLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRG 58
Query: 367 KILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRT 426
K+LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+
Sbjct: 59 KMLNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKG 118
Query: 427 LLLTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQY---CYDDAELKKVKSSFPSNAL 482
L++ F L D +G + + P+ KV K + Y+ + +K +
Sbjct: 119 LIINFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFT 178
Query: 483 YSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 542
+ + +KGLG + ++ E N ++ + K + + + + + D RKE ++
Sbjct: 179 WKQKYYKGLGTSLAQEVREYFSNLDRHL-KIFHSLQGNDKDYIDLAFSKKKADDRKEWLR 237
Query: 543 N 543
Sbjct: 238 Q 238
|
| >d1ei1a1 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia coli [TaxId: 562]} Length = 172 | Back information, alignment and structure |
|---|
| >d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]} Length = 172 | Back information, alignment and structure |
|---|
| >d1s16a1 d.14.1.3 (A:1217-1383) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} Length = 167 | Back information, alignment and structure |
|---|
| >d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId: 562]} Length = 219 | Back information, alignment and structure |
|---|
| >d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} Length = 168 | Back information, alignment and structure |
|---|
| >d1kija2 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermophilus [TaxId: 274]} Length = 212 | Back information, alignment and structure |
|---|
| >d1pvga1 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 161 | Back information, alignment and structure |
|---|
| >d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 239 | Back information, alignment and structure |
|---|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 555 | |||
| d1bjta_ | 760 | DNA topoisomerase II, C-terminal fragment (residue | 100.0 | |
| d1kija1 | 172 | DNA gyrase B {Thermus thermophilus [TaxId: 274]} | 100.0 | |
| d1ei1a1 | 172 | DNA gyrase B {Escherichia coli [TaxId: 562]} | 100.0 | |
| d1s16a1 | 167 | Topoisomerase IV subunit B {Escherichia coli [TaxI | 100.0 | |
| d1ei1a2 | 219 | DNA gyrase B {Escherichia coli [TaxId: 562]} | 100.0 | |
| d1kija2 | 212 | DNA gyrase B {Thermus thermophilus [TaxId: 274]} | 100.0 | |
| d1pvga2 | 239 | DNA topoisomerase II {Baker's yeast (Saccharomyces | 99.97 | |
| d1pvga1 | 161 | DNA topoisomerase II {Baker's yeast (Saccharomyces | 99.95 | |
| d1s14a_ | 168 | Topoisomerase IV subunit B {Escherichia coli [TaxI | 99.94 | |
| d1h7sa2 | 203 | DNA mismatch repair protein PMS2 {Human (Homo sapi | 97.47 | |
| d2hkja3 | 219 | Topoisomerase VI-B subunit {Archaeon Sulfolobus sh | 94.8 | |
| d2hkja2 | 164 | Topoisomerase VI-B subunit {Archaeon Sulfolobus sh | 85.27 |
| >d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: Type II DNA topoisomerase superfamily: Type II DNA topoisomerase family: Type II DNA topoisomerase domain: DNA topoisomerase II, C-terminal fragment (residues 410-1202) species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Probab=100.00 E-value=1.5e-71 Score=628.50 Aligned_cols=228 Identities=27% Similarity=0.436 Sum_probs=175.8
Q ss_pred CCCCCCCCCCC---CCCCCCceeEEeeccCC-----CccccccCCCCceeecccCcccccccccCHHHHhhCHhHHHHHH
Q 008738 319 SSLPGKLADCS---STTPEESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIR 390 (555)
Q Consensus 319 ~~lpgKL~dc~---~~~~~~~eL~lvEGDSA-----~gsa~~gRdr~~qai~PLrGKiLNv~ka~~~ki~~N~Ei~~li~ 390 (555)
.++| ||+||+ ++++.+||||||||||| +|++++||| ||||||||||||||++++.++|++|+||++|++
T Consensus 6 ~~~p-kl~d~~~~g~~~~~~~~l~~~EGdSA~~~~~~g~~~~~rd--~~~v~plrGK~lN~~~~~~~~~~~n~ei~~l~~ 82 (760)
T d1bjta_ 6 TNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKMLNVREASADQILKNAEIQAIKK 82 (760)
T ss_dssp CSCT-TCBCCTTTTSGGGGGCEEEEEESHHHHHHHHHHHHHHCSS--SEEEEEEECCCCSCCC------CCHHHHHHHHH
T ss_pred CCCC-CcccccccCCCChhhcEEEEecccCccccccCcccccccc--cEEEeecCCcccccccCCHHHHhhCHHHHHHHH
Confidence 3577 999998 68999999999999999 778888888 799999999999999999999999999999999
Q ss_pred HhcCCccCCcCcccccceeeEEEeecCCCCCcchHHhHHHHHHHHHHHhhh-cCcEEEecCCeEEEEe---CCeEEEeeC
Q 008738 391 ALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIYVGVPPLYKVER---GKQVQYCYD 466 (555)
Q Consensus 391 alG~~~~~~~~~~~~LRYgkiiimtDaD~DG~HI~~Llltff~~~~p~Li~-~g~v~~~~tPl~kv~~---gk~~~~~~s 466 (555)
||||+++..+.|+++||||||||||||||||+||+||||||||+|||+||+ +||||+|+||||||+. ++.+++||+
T Consensus 83 ~lG~~~~~~~~~~~~lrY~~i~imtDaD~DG~hI~~Lll~ff~~~~p~l~~~~g~i~~~~~Pl~~~~~~~~~~~~~~~y~ 162 (760)
T d1bjta_ 83 IMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLIINFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYN 162 (760)
T ss_dssp HHTCCSSBCCSCSSSSSCSEEEEEEC-----CCHHHHHHHHHHHHBTTTTTSTTSEEECCCCSEEEEECSSCCEEEEESS
T ss_pred HHCCCCCCCCCchhhCCCCcEEEEECCCCCchHHHHHHHHHHHHhhHHHhccCCEEEEEeCCcEEEEecCCCcceeeecc
Confidence 999999555558999999999999999999999999999999999999998 8999999999999975 456789999
Q ss_pred HHHHHHHHHhCCCCCCccceeeeccccCChhhHHhhhcCCCceeEEeeccccHHHHHHHHHHhcCCCchHHHHHHHhccc
Q 008738 467 DAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAAN 546 (555)
Q Consensus 467 ~~e~~~~~~~~~~~~~~~i~ryKGLGe~~~~~l~et~~~p~~r~l~~v~~~d~~~~~~~f~~lmg~~~~~Rk~~i~~~~~ 546 (555)
++|+++|..+....++|+||||||||||+|+|+|||||||++|++.++++++. .++.++.+|+|+.+++||+||.++.+
T Consensus 163 ~~e~~~~~~~~~~~~~~~i~~yKGLG~~~~~e~~e~~~~~~~~~~~~~~~~~~-~~~~~~~~F~k~~~d~RKewl~~~~~ 241 (760)
T d1bjta_ 163 MPDYEKWREEESHKFTWKQKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGN-DKDYIDLAFSKKKADDRKEWLRQYEP 241 (760)
T ss_dssp HHHHHHHHHHTTTTSCEEECCCCCCSTTHHHHHHHHHHHHHHHHHHHHHCC----------------------CCCCSCC
T ss_pred hhhHHHHHHHhcCccccchhcccccccccchhhHHHhcccccccceeEeccch-hHHHHHHHHhhcccchHHHHHhhccc
Confidence 99999999886655689999999999999999999999999987666655543 23455555679999999999999987
Q ss_pred cCCc
Q 008738 547 LVNL 550 (555)
Q Consensus 547 ~~~~ 550 (555)
...+
T Consensus 242 ~~~~ 245 (760)
T d1bjta_ 242 GTVL 245 (760)
T ss_dssp ----
T ss_pred cccc
Confidence 6433
|
| >d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
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| >d1ei1a1 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1s16a1 d.14.1.3 (A:1217-1383) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1kija2 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
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| >d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
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| >d1pvga1 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
| >d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1h7sa2 d.122.1.2 (A:29-231) DNA mismatch repair protein PMS2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2hkja3 d.122.1.2 (A:10-228) Topoisomerase VI-B subunit {Archaeon Sulfolobus shibatae [TaxId: 2286]} | Back information, alignment and structure |
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| >d2hkja2 d.14.1.3 (A:307-470) Topoisomerase VI-B subunit {Archaeon Sulfolobus shibatae [TaxId: 2286]} | Back information, alignment and structure |
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