BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 005193
(709 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XCO|A Chain A, The 3.1a Crystal Structure Of The Catalytic Core (B'a'
Region) Of Staphylococcus Aureus Dna Gyrase
pdb|2XCQ|A Chain A, The 2.98a Crystal Structure Of The Catalytic Core (B'a'
Region) Of Staphylococcus Aureus Dna Gyrase
Length = 726
Score = 280 bits (715), Expect = 2e-75, Method: Compositional matrix adjust.
Identities = 137/237 (57%), Positives = 169/237 (71%), Gaps = 1/237 (0%)
Query: 473 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA 532
+SLPGKLADCSS +PEE EIF+VEGDSAGGS K GRD R QAILPLRGKILNVE+
Sbjct: 4 ASLPGKLADCSSKSPEECEIFLVEGDSAGGSTKSGRDSRTQAILPLRGKILNVEKARLDR 63
Query: 533 MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKT 592
+ N EI+ +I A G G+ G DF RYHKI+I+TDADVDGAHIRTLLLTFFYR+ +
Sbjct: 64 ILNNNEIRQMITAFGTGIGG-DFDLAKARYHKIVIMTDADVDGAHIRTLLLTFFYRFMRP 122
Query: 593 LFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQ 652
L + G +Y+ PPLYK+ +GKQ Y Y+D EL K+KS +SI R+KGLGEM Q
Sbjct: 123 LIEAGYVYIAQPPLYKLTQGKQKYYVYNDRELDKLKSELNPTPKWSIARYKGLGEMNADQ 182
Query: 653 LWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 709
LWETT+NPE R L Q+ +EDA EA+ F LMG V+ R++ I++ A NLD ++
Sbjct: 183 LWETTMNPEHRALLQVKLEDAIEADQTFEMLMGDVVENRRQFIEDNAVYANLDFAEL 239
>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
pdb|2XCR|D Chain D, The 3.5a Crystal Structure Of The Catalytic Core (B'a'
Region) Of Staphylococcus Aureus Dna Gyrase Complexed
With Gsk299423 And Dna
pdb|2XCR|S Chain S, The 3.5a Crystal Structure Of The Catalytic Core (B'a'
Region) Of Staphylococcus Aureus Dna Gyrase Complexed
With Gsk299423 And Dna
pdb|2XCR|U Chain U, The 3.5a Crystal Structure Of The Catalytic Core (B'a'
Region) Of Staphylococcus Aureus Dna Gyrase Complexed
With Gsk299423 And Dna
Length = 726
Score = 280 bits (715), Expect = 3e-75, Method: Compositional matrix adjust.
Identities = 137/237 (57%), Positives = 169/237 (71%), Gaps = 1/237 (0%)
Query: 473 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA 532
+SLPGKLADCSS +PEE EIF+VEGDSAGGS K GRD R QAILPLRGKILNVE+
Sbjct: 4 ASLPGKLADCSSKSPEECEIFLVEGDSAGGSTKSGRDSRTQAILPLRGKILNVEKARLDR 63
Query: 533 MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKT 592
+ N EI+ +I A G G+ G DF RYHKI+I+TDADVDGAHIRTLLLTFFYR+ +
Sbjct: 64 ILNNNEIRQMITAFGTGIGG-DFDLAKARYHKIVIMTDADVDGAHIRTLLLTFFYRFMRP 122
Query: 593 LFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQ 652
L + G +Y+ PPLYK+ +GKQ Y Y+D EL K+KS +SI R+KGLGEM Q
Sbjct: 123 LIEAGYVYIAQPPLYKLTQGKQKYYVYNDRELDKLKSELNPTPKWSIARYKGLGEMNADQ 182
Query: 653 LWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 709
LWETT+NPE R L Q+ +EDA EA+ F LMG V+ R++ I++ A NLD ++
Sbjct: 183 LWETTMNPEHRALLQVKLEDAIEADQTFEMLMGDVVENRRQFIEDNAVYANLDFAEL 239
>pdb|1EI1|A Chain A, Dimerization Of E. Coli Dna Gyrase B Provides A Structural
Mechanism For Activating The Atpase Catalytic Center
pdb|1EI1|B Chain B, Dimerization Of E. Coli Dna Gyrase B Provides A Structural
Mechanism For Activating The Atpase Catalytic Center
Length = 391
Score = 259 bits (662), Expect = 3e-69, Method: Compositional matrix adjust.
Identities = 140/367 (38%), Positives = 213/367 (58%), Gaps = 22/367 (5%)
Query: 82 IQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS- 139
I+VL+GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I V + ADNS
Sbjct: 9 IKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSV 68
Query: 140 --------IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALS 191
IP +HP SA E ++TVLHA NALS
Sbjct: 69 SVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVV--NALS 126
Query: 192 ESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFD 251
+ LE+ + R+G + Q Y G P L ++ GT +RFWP + FT +F+
Sbjct: 127 QKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNVTEFE 182
Query: 252 HNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-D 310
+ +A R+REL+FL+ ++I LR D + + + + GG++ +V++LN +K P+H +
Sbjct: 183 YEILAKRLRELSFLDSGVSIRLR----DKRDGKEDHFHYEGGIKAFVEYLNKNKTPIHPN 238
Query: 311 VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 370
+ F + DGI +++ALQW +D + + + + N+I DGGTH+ G +A++TRTLN+
Sbjct: 239 IFYFSTEKDGIGVEVALQW-NDGFQENIYCFTNNIPQRDGGTHLAGFRAAMTRTLNAYMD 297
Query: 371 KSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLT 430
K K +S +G+ REGL ++SV+VP+P+F QTK +L + EV+ V+Q + E L
Sbjct: 298 KEGYSKKAKVSATGDDAREGLIAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQQMNELLA 357
Query: 431 EYLELHP 437
EYL +P
Sbjct: 358 EYLLENP 364
>pdb|3FOE|C Chain C, Structural Insight Into The Quinolone-Dna Cleavage Complex
Of Type Iia Topoisomerases
pdb|3FOE|D Chain D, Structural Insight Into The Quinolone-Dna Cleavage Complex
Of Type Iia Topoisomerases
pdb|3FOF|C Chain C, Structural Insight Into The Quinolone-Dna Cleavage Complex
Of Type Iia Topoisomerases
pdb|3FOF|D Chain D, Structural Insight Into The Quinolone-Dna Cleavage Complex
Of Type Iia Topoisomerases
pdb|3K9F|C Chain C, Detailed Structural Insight Into The Quinolone-Dna
Cleavage Complex Of Type Iia Topoisomerases
pdb|3K9F|D Chain D, Detailed Structural Insight Into The Quinolone-Dna
Cleavage Complex Of Type Iia Topoisomerases
pdb|3KSA|C Chain C, Detailed Structural Insight Into The Dna Cleavage Complex
Of Type Iia Topoisomerases (Cleaved Form)
pdb|3KSA|D Chain D, Detailed Structural Insight Into The Dna Cleavage Complex
Of Type Iia Topoisomerases (Cleaved Form)
pdb|3KSB|C Chain C, Detailed Structural Insight Into The Dna Cleavage Complex
Of Type Iia Topoisomerases (Re-Sealed Form)
pdb|3KSB|D Chain D, Detailed Structural Insight Into The Dna Cleavage Complex
Of Type Iia Topoisomerases (Re-Sealed Form)
pdb|3LTN|C Chain C, Inhibitor-Stabilized Topoisomerase Iv-Dna Cleavage Complex
(S. Pneumoniae)
pdb|3LTN|D Chain D, Inhibitor-Stabilized Topoisomerase Iv-Dna Cleavage Complex
(S. Pneumoniae)
pdb|3RAF|C Chain C, Quinazolinedione-Dna Cleavage Complex Of Type Iv
Topoisomerase From S. Pneumoniae
pdb|3RAF|D Chain D, Quinazolinedione-Dna Cleavage Complex Of Type Iv
Topoisomerase From S. Pneumoniae
pdb|3RAD|C Chain C, Quinolone(Clinafloxacin)-Dna Cleavage Complex Of Type Iv
Topoisomerase From S. Pneumoniae
pdb|3RAD|D Chain D, Quinolone(Clinafloxacin)-Dna Cleavage Complex Of Type Iv
Topoisomerase From S. Pneumoniae
pdb|3RAE|C Chain C, Quinolone(Levofloxacin)-Dna Cleavage Complex Of Type Iv
Topoisomerase From S. Pneumoniae
pdb|3RAE|D Chain D, Quinolone(Levofloxacin)-Dna Cleavage Complex Of Type Iv
Topoisomerase From S. Pneumoniae
Length = 268
Score = 240 bits (612), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 119/227 (52%), Positives = 159/227 (70%), Gaps = 7/227 (3%)
Query: 475 LPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMY 534
L GKL S P ++E+++VEGDSAGGSAKQGRDR+FQAILPLRGK++N + A +
Sbjct: 33 LSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVINTAKAKMADIL 92
Query: 535 KNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLF 594
KNEEI +I +G GV G DF E Y KIII+TDAD DGAHI+TLLLTFFYRY + L
Sbjct: 93 KNEEINTMIYTIGAGV-GADFSIEDANYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLV 151
Query: 595 DEGCIYVGVPPLYKVERGK----QVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMP 650
+ G +Y+ +PPLYK+ +GK +V Y + D EL++++ F A ++QR+KGLGEM
Sbjct: 152 EAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGELEELRKQFGKGA--TLQRYKGLGEMNA 209
Query: 651 VQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQN 697
QLWETT+NPE R L ++ IED A A + LMG +V+ R++ I++
Sbjct: 210 DQLWETTMNPETRTLIRVTIEDLARAERRVNVLMGDKVEPRRKWIED 256
>pdb|2XCS|B Chain B, The 2.1a Crystal Structure Of S. Aureus Gyrase Complex
With Gsk299423 And Dna
pdb|2XCS|D Chain D, The 2.1a Crystal Structure Of S. Aureus Gyrase Complex
With Gsk299423 And Dna
pdb|2XCT|B Chain B, The Twinned 3.35a Structure Of S. Aureus Gyrase Complex
With Ciprofloxacin And Dna
pdb|2XCT|D Chain D, The Twinned 3.35a Structure Of S. Aureus Gyrase Complex
With Ciprofloxacin And Dna
pdb|2XCT|S Chain S, The Twinned 3.35a Structure Of S. Aureus Gyrase Complex
With Ciprofloxacin And Dna
pdb|2XCT|U Chain U, The Twinned 3.35a Structure Of S. Aureus Gyrase Complex
With Ciprofloxacin And Dna
Length = 692
Score = 229 bits (585), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 120/237 (50%), Positives = 147/237 (62%), Gaps = 35/237 (14%)
Query: 473 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA 532
+SLPGKLADCSS +PEE EIF+VEGDSAGGS K GRD R QAILPLRGKILNVE+
Sbjct: 4 ASLPGKLADCSSKSPEECEIFLVEGDSAGGSTKSGRDSRTQAILPLRGKILNVEKARLDR 63
Query: 533 MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKT 592
+ N EI+ +I A G G+ G DF RYHKI+I+TDADVDGAHIRTLLLTFFYR+ +
Sbjct: 64 ILNNNEIRQMITAFGTGIGG-DFDLAKARYHKIVIMTDADVDGAHIRTLLLTFFYRFMRP 122
Query: 593 LFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQ 652
L + G +Y+ PP +KGLGEM Q
Sbjct: 123 LIEAGYVYIAQPP----------------------------------TGYKGLGEMNADQ 148
Query: 653 LWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 709
LWETT+NPE R L Q+ +EDA EA+ F LMG V+ R++ I++ A NLD ++
Sbjct: 149 LWETTMNPEHRALLQVKLEDAIEADQTFEMLMGDVVENRRQFIEDNAVYANLDFAEL 205
>pdb|1KIJ|A Chain A, Crystal Structure Of The 43k Atpase Domain Of Thermus
Thermophilus Gyrase B In Complex With Novobiocin
pdb|1KIJ|B Chain B, Crystal Structure Of The 43k Atpase Domain Of Thermus
Thermophilus Gyrase B In Complex With Novobiocin
Length = 390
Score = 212 bits (539), Expect = 7e-55, Method: Compositional matrix adjust.
Identities = 135/374 (36%), Positives = 197/374 (52%), Gaps = 20/374 (5%)
Query: 76 TYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALL 135
+Y + I+VL+GLE VR RPAMYIG TG G HHL EILDNAVDEA AGYA+ I V L
Sbjct: 2 SYDASAIRVLKGLEGVRHRPAMYIGGTGVEGYHHLFKEILDNAVDEALAGYATEILVRLN 61
Query: 136 ADNS---------IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXX 186
D S IP+DL P K A+E + LH+
Sbjct: 62 EDGSLTVEDNGRGIPVDLMPEEGKPAVEVIYNTLHSGGKFEQGAYKVSGGLHGVGASVV- 120
Query: 187 XNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 246
NALSE V V+R+G + +SRG+ T V+ + + GTR+ F PD ++F
Sbjct: 121 -NALSEWTVVEVFREGKHHRIAFSRGE--VTEPLRVVGEAPRGKTGTRVTFKPDPEIFGN 177
Query: 247 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKK 306
++FD + I R+RE+A+L L + + D + + + GG+ + + L +
Sbjct: 178 -LRFDPSKIRARLREVAYLVAGLKLVFQ----DRQHGKEEVFLDKGGVASFAKALAEGED 232
Query: 307 PLHDVVGFRKDVDG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTL 365
L++ + G + +++ + Y+ +L YAN I T DGGTH+ K++ +R L
Sbjct: 233 LLYEKPFLIRGTHGEVEVEVGF-LHTQGYNAEILTYANMIPTRDGGTHLTAFKSAYSRAL 291
Query: 366 NSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSV 425
N KK+ K+K +G+ + EGL ++SV++PNP+FEGQTK +L NPE V Q V
Sbjct: 292 NQYAKKAGLNKEKGPQPTGDDLLEGLYAVVSVKLPNPQFEGQTKGKLLNPEAGTAVGQVV 351
Query: 426 QEYLTEYLELHPDV 439
E L E LE +P +
Sbjct: 352 YERLLEILEENPRI 365
>pdb|2XKK|A Chain A, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii
Topo Iv (Pare-Parc Fusion Truncate)
pdb|2XKK|C Chain C, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii
Topo Iv (Pare-Parc Fusion Truncate)
Length = 767
Score = 209 bits (531), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 109/242 (45%), Positives = 151/242 (62%), Gaps = 3/242 (1%)
Query: 464 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKIL 523
V +K ++ +LPGKLADC T EESE+FIVEGDSAGGSAKQ RD+ FQAI+P+RGKIL
Sbjct: 18 VERKKIVSGPALPGKLADCVGQTREESELFIVEGDSAGGSAKQARDKNFQAIMPIRGKIL 77
Query: 524 NVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLL 583
N + ++E+ ++ A+G+ +D + LRY KI IL DAD DG HI TLL
Sbjct: 78 NTWEVSSDEVLASQEVHDIAIAIGVDPGSDDLSE--LRYGKICILADADSDGLHIATLLC 135
Query: 584 TFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFK 643
F ++ L +EG +YV +PPL++++ GK V Y DD EL+ + + N I RFK
Sbjct: 136 ALFVKHFPALVEEGHLYVAMPPLFRIDIGKDVHYALDDEELETILKNVKGNKNPQITRFK 195
Query: 644 GLGEMMPVQLWETTLNPEQRMLKQLVIEDA-AEANVVFSSLMGARVDTRKELIQNAANLV 702
GLGEM +QL ETT++P R L QL ++DA A ++ L R RK+ ++ NL
Sbjct: 196 GLGEMNAIQLRETTMDPNTRRLVQLDLDDAHLTAGLLDKLLAKKRAADRKQWLEQKGNLA 255
Query: 703 NL 704
++
Sbjct: 256 DI 257
>pdb|2XKJ|E Chain E, Crystal Structure Of Catalytic Core Of A. Baumannii Topo
Iv (Pare-Parc Fusion Truncate)
Length = 767
Score = 208 bits (530), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 109/242 (45%), Positives = 151/242 (62%), Gaps = 3/242 (1%)
Query: 464 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKIL 523
V +K ++ +LPGKLADC T EESE+FIVEGDSAGGSAKQ RD+ FQAI+P+RGKIL
Sbjct: 18 VERKKIVSGPALPGKLADCVGQTREESELFIVEGDSAGGSAKQARDKNFQAIMPIRGKIL 77
Query: 524 NVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLL 583
N + ++E+ ++ A+G+ +D + LRY KI IL DAD DG HI TLL
Sbjct: 78 NTWEVSSDEVLASQEVHDIAIAIGVDPGSDDLSE--LRYGKICILADADSDGLHIATLLC 135
Query: 584 TFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFK 643
F ++ L +EG +YV +PPL++++ GK V Y DD EL+ + + N I RFK
Sbjct: 136 ALFVKHFPALVEEGHLYVAMPPLFRIDIGKDVHYALDDEELETILKNVKGNKNPQITRFK 195
Query: 644 GLGEMMPVQLWETTLNPEQRMLKQLVIEDA-AEANVVFSSLMGARVDTRKELIQNAANLV 702
GLGEM +QL ETT++P R L QL ++DA A ++ L R RK+ ++ NL
Sbjct: 196 GLGEMNAIQLRETTMDPNTRRLVQLDLDDAHLTAGLLDKLLAKKRAADRKQWLEQKGNLA 255
Query: 703 NL 704
++
Sbjct: 256 DI 257
>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
pdb|3M4I|A Chain A, Crystal Structure Of The Second Part Of The Mycobacterium
Tuberculosis Dna Gyrase Reaction Core: The Toprim Domain
At 1.95 A Resolution
Length = 242
Score = 196 bits (498), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 110/228 (48%), Positives = 152/228 (66%), Gaps = 8/228 (3%)
Query: 485 TTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIR 544
T P +SE+++VEGDSAGGSAK GRD FQAILPLRGKI+NVE+ + KN E+Q +I
Sbjct: 15 TDPRKSELYVVEGDSAGGSAKSGRDSMFQAILPLRGKIINVEKARIDRVLKNTEVQAIIT 74
Query: 545 ALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 604
ALG G+ E F LRYHKI+++ DADVDG HI TLLLT +R+ + L + G +++ P
Sbjct: 75 ALGTGIHDE-FDIGKLRYHKIVLMADADVDGQHISTLLLTLLFRFMRPLIENGHVFLAQP 133
Query: 605 PLYKVE-RGKQVQYCYDDAELK-----KVKSSFPSNALYSIQRFKGLGEMMPVQLWETTL 658
PLYK++ + ++ Y D E +K+ N IQR+KGLGEM +LWETT+
Sbjct: 134 PLYKLKWQRSDPEFAYSDRERDGLLEAGLKAGKKINKEDGIQRYKGLGEMDAKELWETTM 193
Query: 659 NPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI-QNAANLVNLD 705
+P R+L+Q+ ++DAA A+ +FS LMG VD R+ I +NA ++ LD
Sbjct: 194 DPSVRVLRQVTLDDAAAADELFSILMGEDVDARRSFITRNAKDVRFLD 241
>pdb|2ZJT|A Chain A, Crystal Structure Of Dna Gyrase B' Domain Sheds Lights On
The Mechanism For T-Segment Navigation
pdb|2ZJT|B Chain B, Crystal Structure Of Dna Gyrase B' Domain Sheds Lights On
The Mechanism For T-Segment Navigation
Length = 247
Score = 196 bits (497), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 110/228 (48%), Positives = 152/228 (66%), Gaps = 8/228 (3%)
Query: 485 TTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIR 544
T P +SE+++VEGDSAGGSAK GRD FQAILPLRGKI+NVE+ + KN E+Q +I
Sbjct: 7 TDPRKSELYVVEGDSAGGSAKSGRDSMFQAILPLRGKIINVEKARIDRVLKNTEVQAIIT 66
Query: 545 ALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 604
ALG G+ E F LRYHKI+++ DADVDG HI TLLLT +R+ + L + G +++ P
Sbjct: 67 ALGTGIHDE-FDIGKLRYHKIVLMADADVDGQHISTLLLTLLFRFMRPLIENGHVFLAQP 125
Query: 605 PLYKVE-RGKQVQYCYDDAELK-----KVKSSFPSNALYSIQRFKGLGEMMPVQLWETTL 658
PLYK++ + ++ Y D E +K+ N IQR+KGLGEM +LWETT+
Sbjct: 126 PLYKLKWQRSDPEFAYSDRERDGLLEAGLKAGKKINKEDGIQRYKGLGEMDAKELWETTM 185
Query: 659 NPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI-QNAANLVNLD 705
+P R+L+Q+ ++DAA A+ +FS LMG VD R+ I +NA ++ LD
Sbjct: 186 DPSVRVLRQVTLDDAAAADELFSILMGEDVDARRSFITRNAKDVRFLD 233
>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
Score = 189 bits (479), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 90/158 (56%), Positives = 114/158 (72%)
Query: 464 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKIL 523
R+K L + LPGKLADC P SE+++VEGDSAGGSAKQGR+R+ QAILPL+GKIL
Sbjct: 8 TRRKGALDLAGLPGKLADCQERDPALSELYLVEGDSAGGSAKQGRNRKNQAILPLKGKIL 67
Query: 524 NVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLL 583
NVE+ ++E+ LI ALG G+ +++ + LRYH III TDADVDG+HIRTLLL
Sbjct: 68 NVEKARFDKXLSSQEVATLITALGCGIGRDEYNPDKLRYHSIIIXTDADVDGSHIRTLLL 127
Query: 584 TFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDD 621
TFFYR + + G +Y+ PPLYKV++GKQ QY DD
Sbjct: 128 TFFYRQXPEIVERGHVYIAQPPLYKVKKGKQEQYIKDD 165
Score = 66.2 bits (160), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 32/69 (46%), Positives = 46/69 (66%), Gaps = 1/69 (1%)
Query: 638 SIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI-Q 696
SIQR+KGLGE P QLWETT +PE R ++ ++DA A+ +F++L G V+ R+ I +
Sbjct: 351 SIQRYKGLGEXNPEQLWETTXDPESRRXLRVTVKDAIAADQLFTTLXGDAVEPRRAFIEE 410
Query: 697 NAANLVNLD 705
NA N+D
Sbjct: 411 NALKAANID 419
>pdb|3TTZ|A Chain A, Crystal Structure Of A Topoisomerase Atpase Inhibitor
pdb|3TTZ|B Chain B, Crystal Structure Of A Topoisomerase Atpase Inhibitor
pdb|3U2D|A Chain A, S. Aureus Gyrb Atpase Domain In Complex With Small
Molecule Inhibitor
pdb|3U2D|B Chain B, S. Aureus Gyrb Atpase Domain In Complex With Small
Molecule Inhibitor
pdb|3U2K|A Chain A, S. Aureus Gyrb Atpase Domain In Complex With A Small
Molecule Inhibitor
pdb|3U2K|B Chain B, S. Aureus Gyrb Atpase Domain In Complex With A Small
Molecule Inhibitor
Length = 198
Score = 168 bits (426), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 98/227 (43%), Positives = 126/227 (55%), Gaps = 39/227 (17%)
Query: 77 YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLA 136
YG+ QIQVLEGLEAVRKRP MYIGST RGLHHLV+EI+DN++DEA AGYA+ IEV +
Sbjct: 2 YGAGQIQVLEGLEAVRKRPGMYIGSTSERGLHHLVWEIVDNSIDEALAGYANQIEVVIEK 61
Query: 137 DN---------SIPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXX 187
DN IP+D+ + A+E +LT
Sbjct: 62 DNWIKVTDNGRGIPVDIQEKMGRPAVEVILT-------------------------SSVV 96
Query: 188 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 247
NALS+ LEV V R+ YHQ Y +G P L V + D+ GT IRF D ++FT
Sbjct: 97 NALSQDLEVYVHRNETIYHQAYKKGVPQFDLK----EVGTTDKTGTVIRFKADGEIFTET 152
Query: 248 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGL 294
+++ T+ RIRELAFLN + I LR E D E + + Y + GG+
Sbjct: 153 TVYNYETLQQRIRELAFLNKGIQITLRDE-RDEENVREDSYHYEGGI 198
>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.
pdb|4HXZ|B Chain B, 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.
pdb|4HY1|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.
pdb|4HY1|B Chain B, 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.
pdb|4HYM|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.
pdb|4HYM|B Chain B, 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
Score = 164 bits (414), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 115/374 (30%), Positives = 174/374 (46%), Gaps = 23/374 (6%)
Query: 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVAL 134
+ Y ++ I+VL GL+ V+KRP MY P +HL+ EI+DN+VDE AG+AS I + L
Sbjct: 2 QNYNAKSIEVLTGLDPVKKRPGMYTNIENP---NHLIQEIIDNSVDEVLAGFASKINITL 58
Query: 135 LADNSI---------PIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXX 185
DNSI P+D+HP S +E ++T LH+
Sbjct: 59 YEDNSIEVADDGRGMPVDIHPEHKMSGIELIMTKLHSGGKFSNKNYTHSGGLHGVGVSVV 118
Query: 186 XXNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFT 245
NALS LE + RDG YH + G T ++ K GT+IRFWP+K+ F
Sbjct: 119 --NALSTRLEAEIKRDGNVYHIVFEDG--FKTKDLEIIDNVGKKNTGTKIRFWPNKKYFD 174
Query: 246 TAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQW-LNTD 304
I+ + + + A L LTI E K + + F GL+ Y+ L +
Sbjct: 175 D-IKVNFKALKNLLEAKAILCKALTIKYSNE----IKKEKLTWHFETGLKGYLDHKLEAE 229
Query: 305 KKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRT 364
P + +D WC D Y N I T GTH+ G+K +
Sbjct: 230 TLPAEPFIIDNFSNGDSYLDAVFCWCEDPSESIKNSYVNLIPTPQDGTHVTGLKNGIYDA 289
Query: 365 LNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQS 424
+ + +K+ ++ K+I ++ L +ISV++ NP+F GQTK +L N +V V +
Sbjct: 290 IKAYIEKN-SLSVKNIKITANDSFAQLNYVISVKITNPQFAGQTKEKLSNKDVTNFVATA 348
Query: 425 VQEYLTEYLELHPD 438
V++ LT +L +PD
Sbjct: 349 VKDLLTIWLNQNPD 362
>pdb|1S16|A Chain A, Crystal Structure Of E. Coli Topoisomerase Iv Pare 43kda
Subunit Complexed With Adpnp
pdb|1S16|B Chain B, Crystal Structure Of E. Coli Topoisomerase Iv Pare 43kda
Subunit Complexed With Adpnp
Length = 390
Score = 158 bits (400), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 113/375 (30%), Positives = 183/375 (48%), Gaps = 31/375 (8%)
Query: 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEV 132
+++TY ++ I+VL GLE VR+RP MY +T P +HL E++DN+VDEA AG+A ++V
Sbjct: 1 MTQTYNADAIEVLTGLEPVRRRPGMYTDTTRP---NHLGQEVIDNSVDEALAGHAKRVDV 57
Query: 133 ALLADNSI---------PIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXX 183
L AD S+ P+D+HP A+E +L LHA
Sbjct: 58 ILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCRLHA--GGKFSNKNYQFSGGLHGVG 115
Query: 184 XXXXNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQV 243
NALS+ +EV V RDG Y+ + G+ V L V+ K GT + FWPD+
Sbjct: 116 ISVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETF 173
Query: 244 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEY----VQ 299
F + +F + + ++ A L P + I + E ++ E+ + + GL +Y V
Sbjct: 174 FDSP-RFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQ----RWCYQDGLNDYLAEAVN 228
Query: 300 WLNT-DKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVK 358
L T +KP + F D + +D AL W + Y N I T+ GGTH+ G++
Sbjct: 229 GLPTLPEKPF--IGNFAGDTE--AVDWALLWLPEGGELLTESYVNLIPTMQGGTHVNGLR 284
Query: 359 ASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVR 418
L + + + + + + LS E + + ++SV++ +P+F GQTK RL + +
Sbjct: 285 QGLLDAMREFC-EYRNILPRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCA 343
Query: 419 KVVDQSVQEYLTEYL 433
V V++ +L
Sbjct: 344 AFVSGVVKDAFILWL 358
>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.
pdb|4GFN|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
pdb|4GGL|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
pdb|4HXW|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
Score = 157 bits (396), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 90/215 (41%), Positives = 121/215 (56%), Gaps = 17/215 (7%)
Query: 87 GLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS------- 139
GLEAVRKRP MYIGST GLHHLV+EI+DN++DEA AG+A +I+V + D+S
Sbjct: 1 GLEAVRKRPGMYIGSTSGEGLHHLVWEIVDNSIDEALAGFAKSIQVIIEPDDSITVIDDG 60
Query: 140 --IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEVT 197
IP+ + T + A+ETV TVLHA NALS SL+V
Sbjct: 61 RGIPVGIQAKTGRPAVETVFTVLHA--GGKFGGGGYKVSGGLHGVGSSVVNALSTSLDVR 118
Query: 198 VWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAG 257
V++DG Y+Q+Y RG V L ++ DR GT + F PD ++FT +D + +A
Sbjct: 119 VYKDGKVYYQEYRRGAVVDDLKV----IEETDRHGTTVHFIPDPEIFTETTVYDFDKLAT 174
Query: 258 RIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG 292
R+RELAFLN L I++ ED + EY + G
Sbjct: 175 RVRELAFLNRGLHISI--EDRREGQEDKKEYHYEG 207
>pdb|3LNU|A Chain A, Crystal Structure Of Pare Subunit
pdb|3LPS|A Chain A, Crystal Structure Of Pare
Length = 408
Score = 152 bits (385), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 108/369 (29%), Positives = 179/369 (48%), Gaps = 28/369 (7%)
Query: 77 YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLA 136
Y + I+VL GL+ V++RP MY + P +HL E++DN+VDEA AG+A IEV L
Sbjct: 24 YNAADIEVLSGLDPVKRRPGMYTDTARP---NHLAQEVIDNSVDEALAGHAKQIEVTLYK 80
Query: 137 DNS---------IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXX 187
D S +P+D+HP +E +LT LHA
Sbjct: 81 DGSCEVSDDGRGMPVDIHPEEKIPGVELILTRLHA--GGKFNNRNYTFSGGLHGVGVSVV 138
Query: 188 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 247
NALS +E+ + R+G E+ ++ G + L V+ K GTR+RFW D + F T
Sbjct: 139 NALSTKVELFIKREGSEHRMEFRDGNAASKL--EVVGTVGKKNTGTRLRFWADPKYFDTP 196
Query: 248 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKK- 306
+F+ + +R A L P LT+ L E + + + ++F GL +Y++ + +
Sbjct: 197 -KFNVRALRHLLRAKAVLCPGLTVKLHDEAT----GEQDSWYFENGLRDYLKGEMAEHEM 251
Query: 307 -PLHDVVG-FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRT 364
P VG +KD + +D A W + Y N I T GTH+ G+++ LT
Sbjct: 252 LPADLFVGSLKKDTE--IVDWAAGWVPEG-ELVQESYVNLIPTAQHGTHVNGLRSGLTDA 308
Query: 365 LNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQS 424
L + + + + L+ E V + +T ++S+++ +P+F GQTK RL + + ++ +
Sbjct: 309 LREFC-DFRNLLPRGVKLAPEDVWDRVTFVLSLKMTDPQFSGQTKERLSSRQAAGFIEGA 367
Query: 425 VQEYLTEYL 433
+ + YL
Sbjct: 368 AHDAFSLYL 376
>pdb|4B6C|A Chain A, Structure Of The M. Smegmatis Gyrb Atpase Domain In
Complex With An Aminopyrazinamide
pdb|4B6C|B Chain B, Structure Of The M. Smegmatis Gyrb Atpase Domain In
Complex With An Aminopyrazinamide
Length = 196
Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 88/211 (41%), Positives = 117/211 (55%), Gaps = 38/211 (18%)
Query: 75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVAL 134
K YG++ I +LEGLEAVRKRP MYIGSTG RGLHHL++E++DNAVDEA AG+A+ ++V +
Sbjct: 3 KEYGADSITILEGLEAVRKRPGMYIGSTGERGLHHLIWEVVDNAVDEAMAGFATRVDVKI 62
Query: 135 LADNS---------IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXX 185
AD S IP+++H AT ++ V+T +
Sbjct: 63 HADGSVEVRDDGRGIPVEMH-ATGMPTIDVVMTQVGV----------------------S 99
Query: 186 XXNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFT 245
NALS LE TV RDG E+ Q Y R P + GT IRFW D ++F
Sbjct: 100 VVNALSTRLEATVLRDGYEWFQYYDRSVP-----GKLKQGGETKETGTTIRFWADPEIFE 154
Query: 246 TAIQFDHNTIAGRIRELAFLNPKLTIALRKE 276
T ++ T+A R++E+AFLN LTI L E
Sbjct: 155 TT-DYNFETVARRLQEMAFLNKGLTIELTDE 184
>pdb|4DUH|A Chain A, Crystal Structure Of 24 Kda Domain Of E. Coli Dna Gyrase B
In Complex With Small Molecule Inhibitor
pdb|4DUH|B Chain B, Crystal Structure Of 24 Kda Domain Of E. Coli Dna Gyrase B
In Complex With Small Molecule Inhibitor
Length = 220
Score = 150 bits (378), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 87/224 (38%), Positives = 120/224 (53%), Gaps = 17/224 (7%)
Query: 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIE 131
+S +Y S I+VL+GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I
Sbjct: 1 MSNSYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEII 60
Query: 132 VALLADNS---------IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXX 182
V + ADNS IP +HP SA E ++TVLHA
Sbjct: 61 VTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGV 120
Query: 183 XXXXXNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQ 242
NALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP +
Sbjct: 121 SVV--NALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLE 174
Query: 243 VFTTAIQFDHNTIAGRIRELAFLNPKLTIALR-KEDSDPEKNQY 285
FT +F++ +A R+REL+FLN ++I LR K D + Y
Sbjct: 175 TFTNVTEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHY 218
>pdb|3G75|A Chain A, Crystal Structure Of Staphylococcus Aureus Gyrase B Co-
Complexed With Inhibitor
pdb|3G75|B Chain B, Crystal Structure Of Staphylococcus Aureus Gyrase B Co-
Complexed With Inhibitor
pdb|3G7B|A Chain A, Staphylococcus Aureus Gyrase B Co-Complex With Inhibitor
pdb|3G7B|B Chain B, Staphylococcus Aureus Gyrase B Co-Complex With Inhibitor
Length = 184
Score = 147 bits (372), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 88/213 (41%), Positives = 114/213 (53%), Gaps = 39/213 (18%)
Query: 87 GLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADN-------- 138
GLEAVRKRP MYIGST RGLHHLV+EI+DN++DEA AGYA+ IEV + DN
Sbjct: 1 GLEAVRKRPGMYIGSTSERGLHHLVWEIVDNSIDEALAGYANQIEVVIEKDNWIKVTDNG 60
Query: 139 -SIPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEVT 197
IP+D+ + A+E +LT NALS+ LEV
Sbjct: 61 RGIPVDIQEKMGRPAVEVILT-------------------------SSVVNALSQDLEVY 95
Query: 198 VWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAG 257
V R+ YHQ Y +G P L V + D+ GT IRF D ++FT +++ T+
Sbjct: 96 VHRNETIYHQAYKKGVPQFDLK----EVGTTDKTGTVIRFKADGEIFTETTVYNYETLQQ 151
Query: 258 RIRELAFLNPKLTIALRKEDSDPEKNQYNEYFF 290
RIRELAFLN + I LR E D E + + Y +
Sbjct: 152 RIRELAFLNKGIQITLRDE-RDEENVREDSYHY 183
>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
Score = 147 bits (372), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 86/223 (38%), Positives = 118/223 (52%), Gaps = 17/223 (7%)
Query: 74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEV 132
S +Y S I+VL+GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I V
Sbjct: 1 SNSYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIV 60
Query: 133 ALLADNS---------IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXX 183
+ ADNS IP +HP SA E ++TVLHA
Sbjct: 61 TIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVS 120
Query: 184 XXXXNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQV 243
NALS+ LE+ + +G + Q Y G P L ++ GT +RFWP +
Sbjct: 121 VV--NALSQKLELVIQHEGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLET 174
Query: 244 FTTAIQFDHNTIAGRIRELAFLNPKLTIALR-KEDSDPEKNQY 285
FT +F++ +A R+REL+FLN ++I LR K D + Y
Sbjct: 175 FTNVTEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHY 217
>pdb|4EM7|A Chain A, Crystal Structure Of A Topoisomerase Atp Inhibitor
pdb|4EMV|A Chain A, Crystal Structure Of A Topoisomerase Atp Inhibitor
Length = 226
Score = 143 bits (360), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 86/212 (40%), Positives = 116/212 (54%), Gaps = 14/212 (6%)
Query: 77 YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLA 136
Y + IQVLEGL+AVRKRP MYIGST GLHHLV+EI+DNAVDEA +G+ I+V +
Sbjct: 11 YNDDAIQVLEGLDAVRKRPGMYIGSTDGAGLHHLVWEIVDNAVDEALSGFGDRIDVTINK 70
Query: 137 DNSIPIDLHP--------ATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXN 188
D S+ + H A +E + T+LHA N
Sbjct: 71 DGSLTVQDHGRGMPTGMHAMGIPTVEVIFTILHA--GGKFGQGGYKTSGGLHGVGSSVVN 128
Query: 189 ALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 247
ALS LEV + RDG Y Q++ GKPVTTL + K + GT++ F PD +F+T
Sbjct: 129 ALSSWLEVEITRDGAVYKQRFENGGKPVTTLKK--IGTALKSKTGTKVTFMPDATIFSTT 186
Query: 248 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSD 279
F +NTI+ R+ E AFL +T++L + +D
Sbjct: 187 -DFKYNTISERLNESAFLLKNVTLSLTDKRTD 217
>pdb|3CWV|A Chain A, Crystal Structure Of B-Subunit Of The Dna Gyrase From
Myxococcus Xanthus
pdb|3CWV|B Chain B, Crystal Structure Of B-Subunit Of The Dna Gyrase From
Myxococcus Xanthus
Length = 369
Score = 140 bits (353), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 103/357 (28%), Positives = 162/357 (45%), Gaps = 27/357 (7%)
Query: 88 LEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSIPIDLHPA 147
+E VRKRP MY G G GLHHLVY +LD A +EA+ G ++ + + D SI L
Sbjct: 12 VENVRKRPGMYCGDVGEYGLHHLVYFLLDVAYEEARRGECRDVVLEVGGDGSI--ALFCT 69
Query: 148 TNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEVTVWRDGMEYHQ 207
+ E ++ V ALS +V +W DG ++
Sbjct: 70 SRTVTAENLVRVATGAGFLGRPPGDGWGWDSMLVVSL----ALSSRYQVDIWADGRQWRV 125
Query: 208 KYSRGKP----VTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELA 263
G P +PV ++ +G R+ F PD +F + FD ++ R ELA
Sbjct: 126 MGEHGHPQGEGAAVTPMEPMPVSAE--RGVRVHFVPDATIFEV-LAFDRARLSRRCNELA 182
Query: 264 FLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-DVVGFRKDVDGIT 322
L P L ++ +D ++ + + GG+ ++ L + LH + V F DG+
Sbjct: 183 ALAPGLRVSF----ADLQRGERTLWHLPGGVAQWAHVLTEARPQLHPEPVVFDFTWDGLR 238
Query: 323 IDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL 382
+ ALQWC D S T+L +AN++RT+ G H++GV +L L L +++ +
Sbjct: 239 VQCALQWCEDEDS-TLLSFANAVRTVRHGAHVKGVTQALRGALAKLSGETRG------AF 291
Query: 383 SGEHVREGLTCIISVRVPNPE--FEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHP 437
V +GLT I++V P + F G TK L P + + + + +Q E L HP
Sbjct: 292 PWARVAQGLTAIVAVSGPRRQMAFAGPTKELLAIPGLEEAIRKQLQPLFIELLREHP 348
>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
pdb|4HZ5|B Chain B, 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
pdb|4HZ5|C Chain C, 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
pdb|4HZ5|D Chain D, 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
pdb|4HZ5|E Chain E, 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
pdb|4HZ5|F Chain F, 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
pdb|4HZ5|G Chain G, 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
pdb|4HZ5|H Chain H, 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
pdb|4HZ5|J Chain J, 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
Score = 139 bits (351), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 88/208 (42%), Positives = 112/208 (53%), Gaps = 17/208 (8%)
Query: 87 GLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSI------ 140
GLEAVRKRP MYIGST RGLHHLVYEI+DNAVDEA +GY + I V + DNSI
Sbjct: 2 GLEAVRKRPGMYIGSTDSRGLHHLVYEIVDNAVDEALSGYGNEINVTIQKDNSICVADSG 61
Query: 141 ---PIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEVT 197
P +H A+ +E + TVLHA NALS+ LEV
Sbjct: 62 RGMPTGMH-ASGIPTVEVIFTVLHA--GGKFGQGGYKTSGGLHGVGASVVNALSKWLEVH 118
Query: 198 VWRDGMEYHQKY-SRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIA 256
+ RDG+EY +++ GKPV TL +K R GT + F PD +F+T F + +A
Sbjct: 119 IVRDGVEYMERFEDGGKPVGTLKK---IGKTKKRNGTSVTFLPDDTIFSTT-NFSYEILA 174
Query: 257 GRIRELAFLNPKLTIALRKEDSDPEKNQ 284
R+RE AFL + I L E + K +
Sbjct: 175 ERLRESAFLLKGVKITLTDERGEEPKEE 202
>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.
pdb|4HYP|B Chain B, 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.
pdb|4HYP|C Chain C, 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.
pdb|4HYP|D Chain D, 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
Score = 139 bits (350), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 83/219 (37%), Positives = 114/219 (52%), Gaps = 21/219 (9%)
Query: 87 GLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS------ 139
GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I V + ADNS
Sbjct: 2 GLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDD 61
Query: 140 ---IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEV 196
IP +HP SA E ++TVLHA NALS+ LE+
Sbjct: 62 GRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVV--NALSQKLEL 119
Query: 197 TVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIA 256
+ R+G + Q Y G P L ++ GT +RFWP + FT +F++ +A
Sbjct: 120 VIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNVTEFEYEILA 175
Query: 257 GRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLE 295
R+REL+FLN ++I LR + E ++F GLE
Sbjct: 176 KRLRELSFLNSGVSIRLRDKRDGKE-----DHFHYEGLE 209
>pdb|1KZN|A Chain A, Crystal Structure Of E. Coli 24kda Domain In Complex With
Clorobiocin
Length = 205
Score = 139 bits (349), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 81/210 (38%), Positives = 110/210 (52%), Gaps = 17/210 (8%)
Query: 87 GLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS------ 139
GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I V + ADNS
Sbjct: 1 GLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDD 60
Query: 140 ---IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEV 196
IP +HP SA E ++TVLHA NALS+ LE+
Sbjct: 61 GRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVV--NALSQKLEL 118
Query: 197 TVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIA 256
+ R+G + Q Y G P L ++ GT +RFWP + FT +F++ +A
Sbjct: 119 VIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNVTEFEYEILA 174
Query: 257 GRIRELAFLNPKLTIALR-KEDSDPEKNQY 285
R+REL+FLN ++I LR K D + Y
Sbjct: 175 KRLRELSFLNSGVSIRLRDKRDGKEDHFHY 204
>pdb|3G7E|A Chain A, Crystal Structure Of E. Coli Gyrase B Co-Complexed With
Inhibitor
Length = 203
Score = 138 bits (347), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 78/198 (39%), Positives = 106/198 (53%), Gaps = 16/198 (8%)
Query: 87 GLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNS------ 139
GL+AVRKRP MYIG T GLHH+V+E++DNA+DEA AG+ I V + ADNS
Sbjct: 1 GLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDD 60
Query: 140 ---IPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEV 196
IP +HP SA E ++TVLHA NALS+ LE+
Sbjct: 61 GRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVV--NALSQKLEL 118
Query: 197 TVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIA 256
+ R+G + Q Y G P L ++ GT +RFWP + FT +F++ +A
Sbjct: 119 VIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNVTEFEYEILA 174
Query: 257 GRIRELAFLNPKLTIALR 274
R+REL+FLN ++I LR
Sbjct: 175 KRLRELSFLNSGVSIRLR 192
>pdb|1S14|A Chain A, Crystal Structure Of Escherichia Coli Topoisomerase Iv
Pare 24kda Subunit
pdb|1S14|B Chain B, Crystal Structure Of Escherichia Coli Topoisomerase Iv
Pare 24kda Subunit
Length = 194
Score = 108 bits (269), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 70/219 (31%), Positives = 110/219 (50%), Gaps = 40/219 (18%)
Query: 73 VSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEV 132
+++TY ++ I+VL GLE VR+RP MY +T P +HL E++DN+VDEA AG+A ++V
Sbjct: 1 MTQTYNADAIEVLTGLEPVRRRPGMYTDTTRP---NHLGQEVIDNSVDEALAGHAKRVDV 57
Query: 133 ALLADNSI---------PIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXX 183
L AD S+ P+D+HP A+E +L +
Sbjct: 58 ILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCI------------------------ 93
Query: 184 XXXXNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQV 243
NALS+ +EV V RDG Y+ + G+ V L V+ K GT + FWPD+
Sbjct: 94 -SVVNALSKRVEVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETF 150
Query: 244 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEK 282
F + +F + + ++ A L P + I + E ++ E+
Sbjct: 151 FDSP-RFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQ 188
>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.
pdb|4HZ0|B Chain B, 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
Score = 104 bits (260), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 70/208 (33%), Positives = 103/208 (49%), Gaps = 17/208 (8%)
Query: 84 VLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSI--- 140
VL GLE VR+RP MY +T P +HL E++DN+VDEA AG+A ++V L AD S+
Sbjct: 1 VLTGLEPVRRRPGMYTDTTRP---NHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVI 57
Query: 141 ------PIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESL 194
P+D+HP A+E +L LHA NALS+ +
Sbjct: 58 DDGRGMPVDIHPEEGVPAVELILCRLHA--GGKFSNKNYQFSGGLHGVGISVVNALSKRV 115
Query: 195 EVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNT 254
EV V RDG Y+ + G+ V L V+ K GT + FWPD+ F + +F +
Sbjct: 116 EVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETFFDSP-RFSVSR 172
Query: 255 IAGRIRELAFLNPKLTIALRKEDSDPEK 282
+ ++ A L P + I + E ++ E+
Sbjct: 173 LTHVLKAKAVLCPGVEITFKDEINNTEQ 200
>pdb|4FM9|A Chain A, Human Topoisomerase Ii Alpha Bound To Dna
Length = 763
Score = 103 bits (257), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 73/228 (32%), Positives = 113/228 (49%), Gaps = 17/228 (7%)
Query: 481 DCSSTTPEESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYK 535
D E + + EGDSA G GRD+ + PLRGKILNV + +
Sbjct: 16 DAGGRNSTECTLILTEGDSAKTLAVSGLGVVGRDK--YGVFPLRGKILNVREASHKQIME 73
Query: 536 NEEIQNLIRALGLGVKGEDFKKE----ALRYHKIIILTDADVDGAHIRTLLLTFFYRYQK 591
N EI N+I+ +GL K ++++ E LRY KI+I+TD D DG+HI+ LL+ F +
Sbjct: 74 NAEINNIIKIVGLQYK-KNYEDEDSLKTLRYGKIMIMTDQDQDGSHIKGLLINFIHHNWP 132
Query: 592 TLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPV 651
+L + + P+ KV + KQ Y E ++ KSS P++ + ++ +KGLG
Sbjct: 133 SLLRHRFLEEFITPIVKVSKNKQEMAFYSLPEFEEWKSSTPNHKKWKVKYYKGLGTSTSK 192
Query: 652 QLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQN 697
+ E + + K ED A ++ FS ++D RKE + N
Sbjct: 193 EAKEYFADMKRHRIQFKYSGPEDDAAISLAFSK---KQIDDRKEWLTN 237
>pdb|3FV5|A Chain A, Crystal Structure Of E. Coli Topoisomerase Iv Co-Complexed
With Inhibitor
pdb|3FV5|B Chain B, Crystal Structure Of E. Coli Topoisomerase Iv Co-Complexed
With Inhibitor
Length = 201
Score = 101 bits (252), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 68/205 (33%), Positives = 101/205 (49%), Gaps = 17/205 (8%)
Query: 87 GLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSI------ 140
GLE VR+RP MY +T P +HL E++DN+VDEA AG+A ++V L AD S+
Sbjct: 1 GLEPVRRRPGMYTDTTRP---NHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDG 57
Query: 141 ---PIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEVT 197
P+D+HP A+E +L LHA NALS+ +EV
Sbjct: 58 RGMPVDIHPEEGVPAVELILCRLHA--GGKFSNKNYQFSGGLHGVGISVVNALSKRVEVN 115
Query: 198 VWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAG 257
V RDG Y+ + G+ V L V+ K GT + FWPD+ F + +F + +
Sbjct: 116 VRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETFFDSP-RFSVSRLTH 172
Query: 258 RIRELAFLNPKLTIALRKEDSDPEK 282
++ A L P + I + E ++ E+
Sbjct: 173 VLKAKAVLCPGVEITFKDEINNTEQ 197
>pdb|3QX3|A Chain A, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
pdb|3QX3|B Chain B, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
Length = 803
Score = 101 bits (251), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 71/219 (32%), Positives = 105/219 (47%), Gaps = 15/219 (6%)
Query: 489 ESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLI 543
E + + EGDSA G GRDR + PLRGKILNV + +N EI N+I
Sbjct: 52 ECTLILTEGDSAKSLAVSGLGVIGRDR--YGVFPLRGKILNVREASHKQIMENAEINNII 109
Query: 544 RALGLGVKGEDFKKEAL---RYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIY 600
+ +GL K E+L RY KI+I+TD D DG+HI+ LL+ F + +L G +
Sbjct: 110 KIVGLQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLE 169
Query: 601 VGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNP 660
+ P+ K + KQ Y E + K + + I+ +KGLG + E +
Sbjct: 170 EFITPIVKASKNKQELSFYSIPEFDEWKKHIENQKAWKIKYYKGLGTSTAKEAKEYFADM 229
Query: 661 EQR--MLKQLVIEDAAEANVVFSSLMGARVDTRKELIQN 697
E+ + + ED A + FS ++D RKE + N
Sbjct: 230 ERHRILFRYAGPEDDAAITLAFSK---KKIDDRKEWLTN 265
>pdb|4GFH|A Chain A, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1103
Score = 76.6 bits (187), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 139/591 (23%), Positives = 224/591 (37%), Gaps = 120/591 (20%)
Query: 78 GSEQIQVLEGLEAVRKRPAMYIGSTGPR-----------------------GLHHLVYEI 114
S++ Q + LE + KRP YIGS + GL + EI
Sbjct: 2 ASDKYQKISQLEHILKRPDTYIGSVETQEQLQWIYDEETDCMIEKNVTIVPGLFKIFDEI 61
Query: 115 LDNAVD-EAQAGYASNIEVALLAD----------NSIPIDLHPATNKSALETVLTVLHAX 163
L NA D + + I+V + A+ IPI++H N E + H
Sbjct: 62 LVNAADNKVRDPSMKRIDVNIHAEEHTIEVKNDGKGIPIEIHNKENIYIPEMIFG--HLL 119
Query: 164 XXXXXXXXXXXXXXXXXXXXXXXXNALSES--LEVTVWRDGMEYHQKYSRGKPVTTLTCH 221
N S LE G +Y QK+ + CH
Sbjct: 120 TSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFILETADLNVGQKYVQKWENNMSI----CH 175
Query: 222 VLPVDS--KDRQGTRIRFWPDKQVFTTAIQFDHNT----------IAGRIREL-AFLNPK 268
+ S K T++ F PD F + D++ I G +R++ +LN K
Sbjct: 176 PPKITSYKKGPSYTKVTFKPDLTRFGMK-ELDNDILGVMRRRVYDINGSVRDINVYLNGK 234
Query: 269 LTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQ 328
++ +R F +E Y++ L L++ + R +V D++ Q
Sbjct: 235 -SLKIRN--------------FKNYVELYLKSL--IPTILYERINNRWEVAFAVSDISFQ 277
Query: 329 WCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVR 388
+ + NSI T GGTH+ + + + ++ + KK K K ++
Sbjct: 278 ---------QISFVNSIATTMGGTHVNYITDQIVKKISEILKKKKKKSVKSF-----QIK 323
Query: 389 EGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVD-QSVQEYLTEYLELHPDVXXXXXXXX 447
+ I+ + NP F QTK +L +V D S E EY+
Sbjct: 324 NNMFIFINCLIENPAFTSQTKEQL----TTRVKDFGSRCEIPLEYIN------------- 366
Query: 448 XXXXXXXXXXXXXXXXVRQKSVLRSSSLPGKLADCSSTTPEE---SEIFIVEGDSA---- 500
+ + R ++ P KL D + +E + + EGDSA
Sbjct: 367 ---KIMKTDLATRMFEIADANESRITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLA 422
Query: 501 -GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEA 559
G A GRD + PLRGK+LNV + KN EIQ + + +GL + + ++
Sbjct: 423 VAGLAVVGRD--YYGCYPLRGKMLNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKS 480
Query: 560 LRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIYVGVPPLYKV 609
LRY ++I+TD D DG+HI+ L++ F L D +G + + P+ KV
Sbjct: 481 LRYGHLMIMTDQDHDGSHIKGLIINFLESSFPGLLDIQGFLLEFITPIIKV 531
>pdb|4GFH|F Chain F, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1099
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 140/593 (23%), Positives = 225/593 (37%), Gaps = 128/593 (21%)
Query: 78 GSEQIQVLEGLEAVRKRPAMYIGSTGPR-----------------------GLHHLVYEI 114
S++ Q + LE + KRP YIGS + GL + EI
Sbjct: 2 ASDKYQKISQLEHILKRPDTYIGSVETQEQLQWIYDEETDCMIEKNVTIVPGLFKIFDEI 61
Query: 115 LDNAVD-EAQAGYASNIEVALLAD----------NSIPIDLHPATNKSALETVLTVLHAX 163
L NA D + + I+V + A+ IPI++H N E + H
Sbjct: 62 LVNAADNKVRDPSMKRIDVNIHAEEHTIEVKNDGKGIPIEIHNKENIYIPEMIFG--HLL 119
Query: 164 XXXXXXXXXXXXXXXXXXXXXXXXNALSES--LEVTVWRDGMEYHQKYSRGKPVTTLTCH 221
N S LE G +Y QK+ + CH
Sbjct: 120 TSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFILETADLNVGQKYVQKWENNMSI----CH 175
Query: 222 VLPVDS--KDRQGTRIRFWPDKQVFTTAIQFDHNT----------IAGRIREL-AFLNPK 268
+ S K T++ F PD F + D++ I G +R++ +LN K
Sbjct: 176 PPKITSYKKGPSYTKVTFKPDLTRFGMK-ELDNDILGVMRRRVYDINGSVRDINVYLNGK 234
Query: 269 LTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQ 328
++ +R F +E Y++ L L++ + R +V D++ Q
Sbjct: 235 -SLKIRN--------------FKNYVELYLKSL--IPTILYERINNRWEVAFAVSDISFQ 277
Query: 329 WCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVR 388
+ + NSI T GGTH+ + + + ++ + KK K K ++
Sbjct: 278 ---------QISFVNSIATTMGGTHVNYITDQIVKKISEILKKKKKKSVKSF-----QIK 323
Query: 389 EGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVD-QSVQEYLTEYLE--LHPDVXXXXXX 445
+ I+ + NP F QTK +L +V D S E EY+ + D+
Sbjct: 324 NNMFIFINCLIENPAFTSQTKEQL----TTRVKDFGSRCEIPLEYINKIMKTDLATRMFE 379
Query: 446 XXXXXXXXXXXXXXXXXXVRQKSVLRSSSLPGKLADCSSTTPEE---SEIFIVEGDSA-- 500
R ++ P KL D + +E + + EGDSA
Sbjct: 380 IAS----------------------RITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALS 416
Query: 501 ---GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKK 557
G A GRD + PLRGK+LNV + KN EIQ + + +GL + +
Sbjct: 417 LAVAGLAVVGRD--YYGCYPLRGKMLNVREASADQILKNAEIQAIKKIMGLQHRKKYEDT 474
Query: 558 EALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EGCIYVGVPPLYKV 609
++LRY ++I+TD D DG+HI+ L++ F L D +G + + P+ KV
Sbjct: 475 KSLRYGHLMIMTDQDHDGSHIKGLIINFLESSFPGLLDIQGFLLEFITPIIKV 527
>pdb|1BGW|A Chain A, Topoisomerase Residues 410-1202
pdb|1BJT|A Chain A, Topoisomerase Ii Residues 409-1201
Length = 793
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 67/240 (27%), Positives = 114/240 (47%), Gaps = 20/240 (8%)
Query: 471 RSSSLPGKLADCSSTTPEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKI 522
R ++ P KL D + +E + + EGDSA G A GRD + PLRGK+
Sbjct: 14 RITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKM 70
Query: 523 LNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLL 582
LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L+
Sbjct: 71 LNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLI 130
Query: 583 LTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQYC---YDDAELKKVKSSFPSNALYS 638
+ F L D +G + + P+ KV K + Y+ + +K + +
Sbjct: 131 INFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWK 190
Query: 639 IQRFKGLGEMMPVQLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 696
+ +KGLG + ++ E + L+ ++ L D ++ FS + D RKE ++
Sbjct: 191 QKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLAFSK---KKADDRKEWLR 247
>pdb|3L4J|A Chain A, Topoisomerase Ii-Dna Cleavage Complex, Apo
pdb|3L4K|A Chain A, Topoisomerase Ii-Dna Cleavage Complex, Metal-Bound
Length = 722
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 67/240 (27%), Positives = 114/240 (47%), Gaps = 20/240 (8%)
Query: 471 RSSSLPGKLADCSSTTPEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKI 522
R ++ P KL D + +E + + EGDSA G A GRD + PLRGK+
Sbjct: 2 RITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKM 58
Query: 523 LNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLL 582
LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L+
Sbjct: 59 LNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLI 118
Query: 583 LTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQYC---YDDAELKKVKSSFPSNALYS 638
+ F L D +G + + P+ KV K + Y+ + +K + +
Sbjct: 119 INFLESSFPGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWK 178
Query: 639 IQRFKGLGEMMPVQLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 696
+ +KGLG + ++ E + L+ ++ L D ++ FS + D RKE ++
Sbjct: 179 QKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLAFSK---KKADDRKEWLR 235
>pdb|2RGR|A Chain A, Topoisomerase Iia Bound To G-segment Dna
Length = 759
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 67/240 (27%), Positives = 114/240 (47%), Gaps = 20/240 (8%)
Query: 471 RSSSLPGKLADCSSTTPEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKI 522
R ++ P KL D + +E + + EGDSA G A GRD + PLRGK+
Sbjct: 4 RITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKM 60
Query: 523 LNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLL 582
LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L+
Sbjct: 61 LNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLI 120
Query: 583 LTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQYC---YDDAELKKVKSSFPSNALYS 638
+ F L D +G + + P+ KV K + Y+ + +K + +
Sbjct: 121 INFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWK 180
Query: 639 IQRFKGLGEMMPVQLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 696
+ +KGLG + ++ E + L+ ++ L D ++ FS + D RKE ++
Sbjct: 181 QKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLAFSK---KKADDRKEWLR 237
>pdb|1ZXM|A Chain A, Human Topo Iia Atpase/amp-pnp
pdb|1ZXM|B Chain B, Human Topo Iia Atpase/amp-pnp
pdb|1ZXN|A Chain A, Human Dna Topoisomerase Iia AtpaseADP
pdb|1ZXN|B Chain B, Human Dna Topoisomerase Iia AtpaseADP
pdb|1ZXN|C Chain C, Human Dna Topoisomerase Iia AtpaseADP
pdb|1ZXN|D Chain D, Human Dna Topoisomerase Iia AtpaseADP
Length = 400
Score = 35.8 bits (81), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 5/75 (6%)
Query: 339 LGYANSIRTIDGGTHIEGVKASL-TRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISV 397
+ + NSI T GG H++ V + T+ ++ + KK+K +++ V+ + ++
Sbjct: 283 ISFVNSIATSKGGRHVDYVADQIVTKLVDVVKKKNKG----GVAVKAHQVKNHMWIFVNA 338
Query: 398 RVPNPEFEGQTKTRL 412
+ NP F+ QTK +
Sbjct: 339 LIENPTFDSQTKENM 353
>pdb|1QZR|A Chain A, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii Bound To Icrf-187
(Dexrazoxane)
pdb|1QZR|B Chain B, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii Bound To Icrf-187
(Dexrazoxane)
Length = 418
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 88/398 (22%), Positives = 142/398 (35%), Gaps = 89/398 (22%)
Query: 72 PVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPR-----------------------GLH 108
PVS S++ Q + LE + KRP YIGS + GL
Sbjct: 10 PVS---ASDKYQKISQLEHILKRPDTYIGSVETQEQLQWIYDEETDCMIEKNVTIVPGLF 66
Query: 109 HLVYEILDNAVD-EAQAGYASNIEVALLAD----------NSIPIDLHPATNKSALETVL 157
+ EIL NA D + + I+V + A+ IPI++H N E +
Sbjct: 67 KIFDEILVNAADNKVRDPSMKRIDVNIHAEEHTIEVKNDGKGIPIEIHNKENIYIPEMIF 126
Query: 158 TVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSES--LEVTVWRDGMEYHQKYSRGKPV 215
H N S LE G +Y QK+ +
Sbjct: 127 G--HLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFILETADLNVGQKYVQKWENNMSI 184
Query: 216 TTLTCHVLPVDS--KDRQGTRIRFWPDKQVFTTAIQFDHNT----------IAGRIREL- 262
CH + S K T++ F PD F + D++ I G +R++
Sbjct: 185 ----CHPPKITSYKKGPSYTKVTFKPDLTRFGMK-ELDNDILGVMRRRVYDINGSVRDIN 239
Query: 263 AFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKP--------LHDVVGF 314
+LN K ++ +R + E + LE+ Q N + L++ +
Sbjct: 240 VYLNGK-SLKIRNFKNYVE-------LYLKSLEKKRQLDNGEDGAAKSDIPTILYERINN 291
Query: 315 RKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKT 374
R +V D++ Q S + NSI T GGTH+ + + + ++ + KK K
Sbjct: 292 RWEVAFAVSDISFQQIS---------FVNSIATTMGGTHVNYITDQIVKKISEILKKKKK 342
Query: 375 VKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRL 412
K ++ + I+ + NP F QTK +L
Sbjct: 343 KSVKSF-----QIKNNMFIFINCLIENPAFTSQTKEQL 375
>pdb|1PVG|A Chain A, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii
pdb|1PVG|B Chain B, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii
Length = 418
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 87/398 (21%), Positives = 141/398 (35%), Gaps = 89/398 (22%)
Query: 72 PVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPR-----------------------GLH 108
PVS S++ Q + LE + KRP YIGS + GL
Sbjct: 10 PVS---ASDKYQKISQLEHILKRPDTYIGSVETQEQLQWIYDEETDCXIEKNVTIVPGLF 66
Query: 109 HLVYEILDNAVD-EAQAGYASNIEVALLAD----------NSIPIDLHPATNKSALETVL 157
+ EIL NA D + + I+V + A+ IPI++H N E +
Sbjct: 67 KIFDEILVNAADNKVRDPSXKRIDVNIHAEEHTIEVKNDGKGIPIEIHNKENIYIPEXIF 126
Query: 158 TVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSES--LEVTVWRDGMEYHQKYSRGKPV 215
H N S LE G +Y QK+ +
Sbjct: 127 G--HLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFILETADLNVGQKYVQKWENNXSI 184
Query: 216 TTLTCHVLPVDS--KDRQGTRIRFWPDKQVFTTAIQFDHNT----------IAGRIREL- 262
CH + S K T++ F PD F + D++ I G +R++
Sbjct: 185 ----CHPPKITSYKKGPSYTKVTFKPDLTRFGXK-ELDNDILGVXRRRVYDINGSVRDIN 239
Query: 263 AFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKP--------LHDVVGF 314
+LN K ++ +R + E + LE+ Q N + L++ +
Sbjct: 240 VYLNGK-SLKIRNFKNYVE-------LYLKSLEKKRQLDNGEDGAAKSDIPTILYERINN 291
Query: 315 RKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKT 374
R +V D++ Q + + NSI T GGTH+ + + + ++ + KK K
Sbjct: 292 RWEVAFAVSDISFQ---------QISFVNSIATTXGGTHVNYITDQIVKKISEILKKKKK 342
Query: 375 VKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRL 412
K ++ I+ + NP F QTK +L
Sbjct: 343 KSVKSF-----QIKNNXFIFINCLIENPAFTSQTKEQL 375
>pdb|2B26|A Chain A, The Crystal Structure Of The Protein Complex Of Yeast
Hsp40 Sis1 And Hsp70 Ssa1
pdb|2B26|B Chain B, The Crystal Structure Of The Protein Complex Of Yeast
Hsp40 Sis1 And Hsp70 Ssa1
pdb|2B26|C Chain C, The Crystal Structure Of The Protein Complex Of Yeast
Hsp40 Sis1 And Hsp70 Ssa1
Length = 173
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 9/60 (15%)
Query: 314 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGT----HIEGVKASLTRTLNSLG 369
F++D D + L L ++ +++LG++ +I+TIDG T ++ V+ S T T G
Sbjct: 82 FKRDGDDLIYTLPL-----SFKESLLGFSKTIQTIDGRTLPLSRVQPVQPSQTSTYPGQG 136
>pdb|1C3G|A Chain A, S. Cerevisiae Heat Shock Protein 40 Sis1
Length = 170
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 9/60 (15%)
Query: 314 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGT----HIEGVKASLTRTLNSLG 369
F++D D + L L ++ +++LG++ +I+TIDG T ++ V+ S T T G
Sbjct: 82 FKRDGDDLIYTLPL-----SFKESLLGFSKTIQTIDGRTLPLSRVQPVQPSQTSTYPGQG 136
>pdb|3HN0|A Chain A, Crystal Structure Of An Abc Transporter (bdi_1369) From
Parabacteroides Distasonis At 1.75 A Resolution
pdb|3HN0|B Chain B, Crystal Structure Of An Abc Transporter (bdi_1369) From
Parabacteroides Distasonis At 1.75 A Resolution
Length = 283
Score = 30.0 bits (66), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 238 WPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDS 278
+P F TA + +AG++ P L+IALRK+ S
Sbjct: 123 YPLNYAFNTAGEITQGILAGKVNRAVLGEPFLSIALRKDSS 163
>pdb|2BZR|A Chain A, Crystal Structure Of Accd5 (Rv3280), An Acyl-Coa
Carboxylase Beta-Subunit From Mycobacterium Tuberculosis
pdb|2BZR|B Chain B, Crystal Structure Of Accd5 (Rv3280), An Acyl-Coa
Carboxylase Beta-Subunit From Mycobacterium Tuberculosis
pdb|2BZR|C Chain C, Crystal Structure Of Accd5 (Rv3280), An Acyl-Coa
Carboxylase Beta-Subunit From Mycobacterium Tuberculosis
pdb|2BZR|D Chain D, Crystal Structure Of Accd5 (Rv3280), An Acyl-Coa
Carboxylase Beta-Subunit From Mycobacterium Tuberculosis
pdb|2BZR|E Chain E, Crystal Structure Of Accd5 (Rv3280), An Acyl-Coa
Carboxylase Beta-Subunit From Mycobacterium Tuberculosis
pdb|2BZR|F Chain F, Crystal Structure Of Accd5 (Rv3280), An Acyl-Coa
Carboxylase Beta-Subunit From Mycobacterium Tuberculosis
Length = 548
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSIPIDL 144
P +H ++ +LD+ E QAGYA NI V + P+ +
Sbjct: 311 PYDMHEVITRLLDDEFLEIQAGYAQNIVVGFGRIDGRPVGI 351
>pdb|2A7S|A Chain A, Crystal Structure Of The Acyl-Coa Carboxylase, Accd5, From
Mycobacterium Tuberculosis
pdb|2A7S|B Chain B, Crystal Structure Of The Acyl-Coa Carboxylase, Accd5, From
Mycobacterium Tuberculosis
pdb|2A7S|C Chain C, Crystal Structure Of The Acyl-Coa Carboxylase, Accd5, From
Mycobacterium Tuberculosis
pdb|2A7S|D Chain D, Crystal Structure Of The Acyl-Coa Carboxylase, Accd5, From
Mycobacterium Tuberculosis
pdb|2A7S|E Chain E, Crystal Structure Of The Acyl-Coa Carboxylase, Accd5, From
Mycobacterium Tuberculosis
pdb|2A7S|F Chain F, Crystal Structure Of The Acyl-Coa Carboxylase, Accd5, From
Mycobacterium Tuberculosis
Length = 548
Score = 30.0 bits (66), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 104 PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSIPIDL 144
P +H ++ +LD+ E QAGYA NI V + P+ +
Sbjct: 311 PYDMHEVITRLLDDEFLEIQAGYAQNIVVGFGRIDGRPVGI 351
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,431,687
Number of Sequences: 62578
Number of extensions: 722876
Number of successful extensions: 1996
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 41
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1841
Number of HSP's gapped (non-prelim): 59
length of query: 709
length of database: 14,973,337
effective HSP length: 106
effective length of query: 603
effective length of database: 8,340,069
effective search space: 5029061607
effective search space used: 5029061607
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)