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= 008738
(555 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 = 279 bits (713), Expect = 3e-75, Method: Compositional matrix adjust.
Identities = 137/237 (57%), Positives = 169/237 (71%), Gaps = 1/237 (0%)
Query: 319 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA 378
+SLPGKLADCSS +PEE EIF+VEGDSAGGS K GRD R QAILPLRGKILNVE+
Sbjct: 4 ASLPGKLADCSSKSPEECEIFLVEGDSAGGSTKSGRDSRTQAILPLRGKILNVEKARLDR 63
Query: 379 MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKT 438
+ N EI+ +I A G G+ G DF RYHKI+I+TDADVDGAHIRTLLLTFFYR+ +
Sbjct: 64 ILNNNEIRQMITAFGTGIGG-DFDLAKARYHKIVIMTDADVDGAHIRTLLLTFFYRFMRP 122
Query: 439 LFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQ 498
L + G +Y+ PPLYK+ +GKQ Y Y+D EL K+KS +SI R+KGLGEM Q
Sbjct: 123 LIEAGYVYIAQPPLYKLTQGKQKYYVYNDRELDKLKSELNPTPKWSIARYKGLGEMNADQ 182
Query: 499 LWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 555
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 = 279 bits (713), Expect = 4e-75, Method: Compositional matrix adjust.
Identities = 137/237 (57%), Positives = 169/237 (71%), Gaps = 1/237 (0%)
Query: 319 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA 378
+SLPGKLADCSS +PEE EIF+VEGDSAGGS K GRD R QAILPLRGKILNVE+
Sbjct: 4 ASLPGKLADCSSKSPEECEIFLVEGDSAGGSTKSGRDSRTQAILPLRGKILNVEKARLDR 63
Query: 379 MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKT 438
+ N EI+ +I A G G+ G DF RYHKI+I+TDADVDGAHIRTLLLTFFYR+ +
Sbjct: 64 ILNNNEIRQMITAFGTGIGG-DFDLAKARYHKIVIMTDADVDGAHIRTLLLTFFYRFMRP 122
Query: 439 LFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQ 498
L + G +Y+ PPLYK+ +GKQ Y Y+D EL K+KS +SI R+KGLGEM Q
Sbjct: 123 LIEAGYVYIAQPPLYKLTQGKQKYYVYNDRELDKLKSELNPTPKWSIARYKGLGEMNADQ 182
Query: 499 LWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 555
LWETT+NPE R L Q+ +EDA EA+ F LMG V+ R++ I++ A NLD ++
Sbjct: 183 LWETTMNPEHRALLQVKLEDAIEADQTFEMLMGDVVENRRQFIEDNAVYANLDFAEL 239
>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 = 239 bits (611), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 119/227 (52%), Positives = 159/227 (70%), Gaps = 7/227 (3%)
Query: 321 LPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMY 380
L GKL S P ++E+++VEGDSAGGSAKQGRDR+FQAILPLRGK++N + A +
Sbjct: 33 LSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVINTAKAKMADIL 92
Query: 381 KNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLF 440
KNEEI +I +G GV G DF E Y KIII+TDAD DGAHI+TLLLTFFYRY + L
Sbjct: 93 KNEEINTMIYTIGAGV-GADFSIEDANYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLV 151
Query: 441 DEGCIYVGVPPLYKVERGK----QVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMP 496
+ G +Y+ +PPLYK+ +GK +V Y + D EL++++ F A ++QR+KGLGEM
Sbjct: 152 EAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGELEELRKQFGKGA--TLQRYKGLGEMNA 209
Query: 497 VQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQN 543
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 (584), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 120/237 (50%), Positives = 147/237 (62%), Gaps = 35/237 (14%)
Query: 319 SSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAA 378
+SLPGKLADCSS +PEE EIF+VEGDSAGGS K GRD R QAILPLRGKILNVE+
Sbjct: 4 ASLPGKLADCSSKSPEECEIFLVEGDSAGGSTKSGRDSRTQAILPLRGKILNVEKARLDR 63
Query: 379 MYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKT 438
+ N EI+ +I A G G+ G DF RYHKI+I+TDADVDGAHIRTLLLTFFYR+ +
Sbjct: 64 ILNNNEIRQMITAFGTGIGG-DFDLAKARYHKIVIMTDADVDGAHIRTLLLTFFYRFMRP 122
Query: 439 LFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQ 498
L + G +Y+ PP +KGLGEM Q
Sbjct: 123 LIEAGYVYIAQPP----------------------------------TGYKGLGEMNADQ 148
Query: 499 LWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQNAANLVNLDHLDI 555
LWETT+NPE R L Q+ +EDA EA+ F LMG V+ R++ I++ A NLD ++
Sbjct: 149 LWETTMNPEHRALLQVKLEDAIEADQTFEMLMGDVVENRRQFIEDNAVYANLDFAEL 205
>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 = 207 bits (528), Expect = 9e-54, Method: Compositional matrix adjust.
Identities = 109/242 (45%), Positives = 151/242 (62%), Gaps = 3/242 (1%)
Query: 310 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKIL 369
V +K ++ +LPGKLADC T EESE+FIVEGDSAGGSAKQ RD+ FQAI+P+RGKIL
Sbjct: 18 VERKKIVSGPALPGKLADCVGQTREESELFIVEGDSAGGSAKQARDKNFQAIMPIRGKIL 77
Query: 370 NVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLL 429
N + ++E+ ++ A+G+ +D + LRY KI IL DAD DG HI TLL
Sbjct: 78 NTWEVSSDEVLASQEVHDIAIAIGVDPGSDDLSE--LRYGKICILADADSDGLHIATLLC 135
Query: 430 TFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFK 489
F ++ L +EG +YV +PPL++++ GK V Y DD EL+ + + N I RFK
Sbjct: 136 ALFVKHFPALVEEGHLYVAMPPLFRIDIGKDVHYALDDEELETILKNVKGNKNPQITRFK 195
Query: 490 GLGEMMPVQLWETTLNPEQRMLKQLVIEDA-AEANVVFSSLMGARVDTRKELIQNAANLV 548
GLGEM +QL ETT++P R L QL ++DA A ++ L R RK+ ++ NL
Sbjct: 196 GLGEMNAIQLRETTMDPNTRRLVQLDLDDAHLTAGLLDKLLAKKRAADRKQWLEQKGNLA 255
Query: 549 NL 550
++
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 = 207 bits (528), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 109/242 (45%), Positives = 151/242 (62%), Gaps = 3/242 (1%)
Query: 310 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKIL 369
V +K ++ +LPGKLADC T EESE+FIVEGDSAGGSAKQ RD+ FQAI+P+RGKIL
Sbjct: 18 VERKKIVSGPALPGKLADCVGQTREESELFIVEGDSAGGSAKQARDKNFQAIMPIRGKIL 77
Query: 370 NVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLL 429
N + ++E+ ++ A+G+ +D + LRY KI IL DAD DG HI TLL
Sbjct: 78 NTWEVSSDEVLASQEVHDIAIAIGVDPGSDDLSE--LRYGKICILADADSDGLHIATLLC 135
Query: 430 TFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFK 489
F ++ L +EG +YV +PPL++++ GK V Y DD EL+ + + N I RFK
Sbjct: 136 ALFVKHFPALVEEGHLYVAMPPLFRIDIGKDVHYALDDEELETILKNVKGNKNPQITRFK 195
Query: 490 GLGEMMPVQLWETTLNPEQRMLKQLVIEDA-AEANVVFSSLMGARVDTRKELIQNAANLV 548
GLGEM +QL ETT++P R L QL ++DA A ++ L R RK+ ++ NL
Sbjct: 196 GLGEMNAIQLRETTMDPNTRRLVQLDLDDAHLTAGLLDKLLAKKRAADRKQWLEQKGNLA 255
Query: 549 NL 550
++
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 (497), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 110/228 (48%), Positives = 152/228 (66%), Gaps = 8/228 (3%)
Query: 331 TTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIR 390
T P +SE+++VEGDSAGGSAK GRD FQAILPLRGKI+NVE+ + KN E+Q +I
Sbjct: 15 TDPRKSELYVVEGDSAGGSAKSGRDSMFQAILPLRGKIINVEKARIDRVLKNTEVQAIIT 74
Query: 391 ALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 450
ALG G+ E F LRYHKI+++ DADVDG HI TLLLT +R+ + L + G +++ P
Sbjct: 75 ALGTGIHDE-FDIGKLRYHKIVLMADADVDGQHISTLLLTLLFRFMRPLIENGHVFLAQP 133
Query: 451 PLYKVE-RGKQVQYCYDDAEL-----KKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTL 504
PLYK++ + ++ Y D E +K+ N IQR+KGLGEM +LWETT+
Sbjct: 134 PLYKLKWQRSDPEFAYSDRERDGLLEAGLKAGKKINKEDGIQRYKGLGEMDAKELWETTM 193
Query: 505 NPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI-QNAANLVNLD 551
+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 = 195 bits (496), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 110/228 (48%), Positives = 152/228 (66%), Gaps = 8/228 (3%)
Query: 331 TTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLIR 390
T P +SE+++VEGDSAGGSAK GRD FQAILPLRGKI+NVE+ + KN E+Q +I
Sbjct: 7 TDPRKSELYVVEGDSAGGSAKSGRDSMFQAILPLRGKIINVEKARIDRVLKNTEVQAIIT 66
Query: 391 ALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIYVGVP 450
ALG G+ E F LRYHKI+++ DADVDG HI TLLLT +R+ + L + G +++ P
Sbjct: 67 ALGTGIHDE-FDIGKLRYHKIVLMADADVDGQHISTLLLTLLFRFMRPLIENGHVFLAQP 125
Query: 451 PLYKVE-RGKQVQYCYDDAEL-----KKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTL 504
PLYK++ + ++ Y D E +K+ N IQR+KGLGEM +LWETT+
Sbjct: 126 PLYKLKWQRSDPEFAYSDRERDGLLEAGLKAGKKINKEDGIQRYKGLGEMDAKELWETTM 185
Query: 505 NPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI-QNAANLVNLD 551
+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 = 5e-48, Method: Compositional matrix adjust.
Identities = 90/158 (56%), Positives = 114/158 (72%)
Query: 310 VRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQAILPLRGKIL 369
R+K L + LPGKLADC P SE+++VEGDSAGGSAKQGR+R+ QAILPL+GKIL
Sbjct: 8 TRRKGALDLAGLPGKLADCQERDPALSELYLVEGDSAGGSAKQGRNRKNQAILPLKGKIL 67
Query: 370 NVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLL 429
NVE+ ++E+ LI ALG G+ +++ + LRYH III TDADVDG+HIRTLLL
Sbjct: 68 NVEKARFDKXLSSQEVATLITALGCGIGRDEYNPDKLRYHSIIIXTDADVDGSHIRTLLL 127
Query: 430 TFFYRYQKTLFDEGCIYVGVPPLYKVERGKQVQYCYDD 467
TFFYR + + G +Y+ PPLYKV++GKQ QY DD
Sbjct: 128 TFFYRQXPEIVERGHVYIAQPPLYKVKKGKQEQYIKDD 165
Score = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 32/69 (46%), Positives = 46/69 (66%), Gaps = 1/69 (1%)
Query: 484 SIQRFKGLGEMMPVQLWETTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELI-Q 542
SIQR+KGLGE P QLWETT +PE R ++ ++DA A+ +F++L G V+ R+ I +
Sbjct: 351 SIQRYKGLGEXNPEQLWETTXDPESRRXLRVTVKDAIAADQLFTTLXGDAVEPRRAFIEE 410
Query: 543 NAANLVNLD 551
NA N+D
Sbjct: 411 NALKAANID 419
>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 = 185 bits (469), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 92/251 (36%), Positives = 152/251 (60%), Gaps = 10/251 (3%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP + FT
Sbjct: 123 NALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNV 178
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKP 153
+F++ +A R+REL+FL+ ++I LR D + + + + GG++ +V++LN +K P
Sbjct: 179 TEFEYEILAKRLRELSFLDSGVSIRLR----DKRDGKEDHFHYEGGIKAFVEYLNKNKTP 234
Query: 154 LH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLN 212
+H ++ F + DGI +++ALQW +D + + + + N+I DGGTH+ G +A++TRTLN
Sbjct: 235 IHPNIFYFSTEKDGIGVEVALQW-NDGFQENIYCFTNNIPQRDGGTHLAGFRAAMTRTLN 293
Query: 213 SLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQ 272
+ K K +S +G+ REGL ++SV+VP+P+F QTK +L + EV+ V+Q +
Sbjct: 294 AYMDKEGYSKKAKVSATGDDAREGLIAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQQMN 353
Query: 273 EYLTEYLELHP 283
E L EYL +P
Sbjct: 354 ELLAEYLLENP 364
>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 = 135 bits (339), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 84/253 (33%), Positives = 137/253 (54%), Gaps = 9/253 (3%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALSE V V+R+G + +SRG+ T V+ + + GTR+ F PD ++F
Sbjct: 121 NALSEWTVVEVFREGKHHRIAFSRGE--VTEPLRVVGEAPRGKTGTRVTFKPDPEIFGN- 177
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKP 153
++FD + I R+RE+A+L L + + D + + + GG+ + + L +
Sbjct: 178 LRFDPSKIRARLREVAYLVAGLKLVFQ----DRQHGKEEVFLDKGGVASFAKALAEGEDL 233
Query: 154 LHDVVGFRKDVDG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLN 212
L++ + G + +++ + Y+ +L YAN I T DGGTH+ K++ +R LN
Sbjct: 234 LYEKPFLIRGTHGEVEVEVGF-LHTQGYNAEILTYANMIPTRDGGTHLTAFKSAYSRALN 292
Query: 213 SLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQ 272
KK+ K+K +G+ + EGL ++SV++PNP+FEGQTK +L NPE V Q V
Sbjct: 293 QYAKKAGLNKEKGPQPTGDDLLEGLYAVVSVKLPNPQFEGQTKGKLLNPEAGTAVGQVVY 352
Query: 273 EYLTEYLELHPDV 285
E L E LE +P +
Sbjct: 353 ERLLEILEENPRI 365
>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 = 111 bits (278), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 74/256 (28%), Positives = 122/256 (47%), Gaps = 21/256 (8%)
Query: 35 ALSESLEVTVWRDGMEYHQKYSRGKP----VTTLTCHVLPVDSKDRQGTRIRFWPDKQVF 90
ALS +V +W DG ++ G P +PV ++ +G R+ F PD +F
Sbjct: 107 ALSSRYQVDIWADGRQWRVMGEHGHPQGEGAAVTPMEPMPVSAE--RGVRVHFVPDATIF 164
Query: 91 TTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTD 150
+ FD ++ R ELA L P L ++ +D ++ + + GG+ ++ L
Sbjct: 165 EV-LAFDRARLSRRCNELAALAPGLRVSF----ADLQRGERTLWHLPGGVAQWAHVLTEA 219
Query: 151 KKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTR 209
+ LH + V F DG+ + ALQWC D S T+L +AN++RT+ G H++GV +L
Sbjct: 220 RPQLHPEPVVFDFTWDGLRVQCALQWCEDEDS-TLLSFANAVRTVRHGAHVKGVTQALRG 278
Query: 210 TLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPE--FEGQTKTRLGNPEVRKVV 267
L L +++ + V +GLT I++V P + F G TK L P + + +
Sbjct: 279 ALAKLSGETRG------AFPWARVAQGLTAIVAVSGPRRQMAFAGPTKELLAIPGLEEAI 332
Query: 268 DQSVQEYLTEYLELHP 283
+ +Q E L HP
Sbjct: 333 RKQLQPLFIELLREHP 348
>pdb|4FM9|A Chain A, Human Topoisomerase Ii Alpha Bound To Dna
Length = 763
Score = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 73/228 (32%), Positives = 113/228 (49%), Gaps = 17/228 (7%)
Query: 327 DCSSTTPEESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYK 381
D E + + EGDSA G GRD+ + PLRGKILNV + +
Sbjct: 16 DAGGRNSTECTLILTEGDSAKTLAVSGLGVVGRDK--YGVFPLRGKILNVREASHKQIME 73
Query: 382 NEEIQNLIRALGLGVKGEDFKKE----ALRYHKIIILTDADVDGAHIRTLLLTFFYRYQK 437
N EI N+I+ +GL K ++++ E LRY KI+I+TD D DG+HI+ LL+ F +
Sbjct: 74 NAEINNIIKIVGLQYK-KNYEDEDSLKTLRYGKIMIMTDQDQDGSHIKGLLINFIHHNWP 132
Query: 438 TLFDEGCIYVGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPV 497
+L + + P+ KV + KQ Y E ++ KSS P++ + ++ +KGLG
Sbjct: 133 SLLRHRFLEEFITPIVKVSKNKQEMAFYSLPEFEEWKSSTPNHKKWKVKYYKGLGTSTSK 192
Query: 498 QLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQN 543
+ E + + K ED A ++ FS ++D RKE + N
Sbjct: 193 EAKEYFADMKRHRIQFKYSGPEDDAAISLAFSK---KQIDDRKEWLTN 237
>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 = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 71/219 (32%), Positives = 105/219 (47%), Gaps = 15/219 (6%)
Query: 335 ESEIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEEIQNLI 389
E + + EGDSA G GRDR + PLRGKILNV + +N EI N+I
Sbjct: 52 ECTLILTEGDSAKSLAVSGLGVIGRDR--YGVFPLRGKILNVREASHKQIMENAEINNII 109
Query: 390 RALGLGVKGEDFKKEAL---RYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFDEGCIY 446
+ +GL K E+L RY KI+I+TD D DG+HI+ LL+ F + +L G +
Sbjct: 110 KIVGLQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLE 169
Query: 447 VGVPPLYKVERGKQVQYCYDDAELKKVKSSFPSNALYSIQRFKGLGEMMPVQLWETTLNP 506
+ P+ K + KQ Y E + K + + I+ +KGLG + E +
Sbjct: 170 EFITPIVKASKNKQELSFYSIPEFDEWKKHIENQKAWKIKYYKGLGTSTAKEAKEYFADM 229
Query: 507 EQR--MLKQLVIEDAAEANVVFSSLMGARVDTRKELIQN 543
E+ + + ED A + FS ++D RKE + N
Sbjct: 230 ERHRILFRYAGPEDDAAITLAFSK---KKIDDRKEWLTN 265
>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 = 100 bits (248), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 74/252 (29%), Positives = 115/252 (45%), Gaps = 9/252 (3%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS LE + RDG YH + G T ++ K GT+IRFWP+K+ F
Sbjct: 119 NALSTRLEAEIKRDGNVYHIVFEDG--FKTKDLEIIDNVGKKNTGTKIRFWPNKKYFDD- 175
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYV-QWLNTDKK 152
I+ + + + A L LTI E K + + F GL+ Y+ L +
Sbjct: 176 IKVNFKALKNLLEAKAILCKALTIKYSNE----IKKEKLTWHFETGLKGYLDHKLEAETL 231
Query: 153 PLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLN 212
P + +D WC D Y N I T GTH+ G+K + +
Sbjct: 232 PAEPFIIDNFSNGDSYLDAVFCWCEDPSESIKNSYVNLIPTPQDGTHVTGLKNGIYDAIK 291
Query: 213 SLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQ 272
+ +K+ ++ K+I ++ L +ISV++ NP+F GQTK +L N +V V +V+
Sbjct: 292 AYIEKN-SLSVKNIKITANDSFAQLNYVISVKITNPQFAGQTKEKLSNKDVTNFVATAVK 350
Query: 273 EYLTEYLELHPD 284
+ LT +L +PD
Sbjct: 351 DLLTIWLNQNPD 362
>pdb|3LNU|A Chain A, Crystal Structure Of Pare Subunit
pdb|3LPS|A Chain A, Crystal Structure Of Pare
Length = 408
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 68/249 (27%), Positives = 123/249 (49%), Gaps = 14/249 (5%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS +E+ + R+G E+ ++ G + L V+ K GTR+RFW D + F T
Sbjct: 139 NALSTKVELFIKREGSEHRMEFRDGNAASKL--EVVGTVGKKNTGTRLRFWADPKYFDTP 196
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKK- 152
+F+ + +R A L P LT+ L E + + + ++F GL +Y++ + +
Sbjct: 197 -KFNVRALRHLLRAKAVLCPGLTVKLHDEAT----GEQDSWYFENGLRDYLKGEMAEHEM 251
Query: 153 -PLHDVVG-FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRT 210
P VG +KD + +D A W + Y N I T GTH+ G+++ LT
Sbjct: 252 LPADLFVGSLKKDTE--IVDWAAGWVPEG-ELVQESYVNLIPTAQHGTHVNGLRSGLTDA 308
Query: 211 LNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQS 270
L + + + + L+ E V + +T ++S+++ +P+F GQTK RL + + ++ +
Sbjct: 309 LREFCD-FRNLLPRGVKLAPEDVWDRVTFVLSLKMTDPQFSGQTKERLSSRQAAGFIEGA 367
Query: 271 VQEYLTEYL 279
+ + YL
Sbjct: 368 AHDAFSLYL 376
>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 = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 70/251 (27%), Positives = 120/251 (47%), Gaps = 17/251 (6%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ +EV V RDG Y+ + G+ V L V+ K GT + FWPD+ F +
Sbjct: 120 NALSKRVEVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETFFDSP 177
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEY----VQWLNT 149
+F + + ++ A L P + I + E ++ E+ + + GL +Y V L T
Sbjct: 178 -RFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQ----RWCYQDGLNDYLAEAVNGLPT 232
Query: 150 -DKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLT 208
+KP + F D + +D AL W + Y N I T+ GGTH+ G++ L
Sbjct: 233 LPEKPF--IGNFAGDTE--AVDWALLWLPEGGELLTESYVNLIPTMQGGTHVNGLRQGLL 288
Query: 209 RTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVD 268
+ + + + + + LS E + + ++SV++ +P+F GQTK RL + + V
Sbjct: 289 DAMREFCE-YRNILPRGVKLSAEDIWDRCAYVLSVKMQDPQFAGQTKERLSSRQCAAFVS 347
Query: 269 QSVQEYLTEYL 279
V++ +L
Sbjct: 348 GVVKDAFILWL 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 = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 43/105 (40%), Positives = 61/105 (58%), Gaps = 6/105 (5%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS SL+V V++DG Y+Q+Y RG V L ++ DR GT + F PD ++FT
Sbjct: 109 NALSTSLDVRVYKDGKVYYQEYRRGAVVDDLKV----IEETDRHGTTVHFIPDPEIFTET 164
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG 138
+D + +A R+RELAFLN L I++ ED + EY + G
Sbjct: 165 TVYDFDKLATRVRELAFLNRGLHISI--EDRREGQEDKKEYHYEG 207
>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 = 78.2 bits (191), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 45/107 (42%), Positives = 61/107 (57%), Gaps = 5/107 (4%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LEV V R+ YHQ Y +G P L V + D+ GT IRF D ++FT
Sbjct: 97 NALSQDLEVYVHRNETIYHQAYKKGVPQFDLK----EVGTTDKTGTVIRFKADGEIFTET 152
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGL 140
+++ T+ RIRELAFLN + I LR E D E + + Y + GG+
Sbjct: 153 TVYNYETLQQRIRELAFLNKGIQITLRDE-RDEENVREDSYHYEGGI 198
>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 = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 67/240 (27%), Positives = 114/240 (47%), Gaps = 20/240 (8%)
Query: 317 RSSSLPGKLADCSSTTPEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKI 368
R ++ P KL D + +E + + EGDSA G A GRD + PLRGK+
Sbjct: 2 RITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKM 58
Query: 369 LNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLL 428
LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L+
Sbjct: 59 LNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLI 118
Query: 429 LTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQYC---YDDAELKKVKSSFPSNALYS 484
+ F L D +G + + P+ KV K + Y+ + +K + +
Sbjct: 119 INFLESSFPGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWK 178
Query: 485 IQRFKGLGEMMPVQLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 542
+ +KGLG + ++ E + L+ ++ L D ++ FS + D RKE ++
Sbjct: 179 QKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLAFSK---KKADDRKEWLR 235
>pdb|1BGW|A Chain A, Topoisomerase Residues 410-1202
pdb|1BJT|A Chain A, Topoisomerase Ii Residues 409-1201
Length = 793
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 67/240 (27%), Positives = 114/240 (47%), Gaps = 20/240 (8%)
Query: 317 RSSSLPGKLADCSSTTPEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKI 368
R ++ P KL D + +E + + EGDSA G A GRD + PLRGK+
Sbjct: 14 RITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKM 70
Query: 369 LNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLL 428
LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L+
Sbjct: 71 LNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLI 130
Query: 429 LTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQYC---YDDAELKKVKSSFPSNALYS 484
+ F L D +G + + P+ KV K + Y+ + +K + +
Sbjct: 131 INFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWK 190
Query: 485 IQRFKGLGEMMPVQLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 542
+ +KGLG + ++ E + L+ ++ L D ++ FS + D RKE ++
Sbjct: 191 QKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLAFSK---KKADDRKEWLR 247
>pdb|2RGR|A Chain A, Topoisomerase Iia Bound To G-segment Dna
Length = 759
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 67/240 (27%), Positives = 114/240 (47%), Gaps = 20/240 (8%)
Query: 317 RSSSLPGKLADCSSTTPEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKI 368
R ++ P KL D + +E + + EGDSA G A GRD + PLRGK+
Sbjct: 4 RITNYP-KLEDANKAGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKM 60
Query: 369 LNVERKDEAAMYKNEEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLL 428
LNV + KN EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L+
Sbjct: 61 LNVREASADQILKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLI 120
Query: 429 LTFFYRYQKTLFD-EGCIYVGVPPLYKVERGKQVQYC---YDDAELKKVKSSFPSNALYS 484
+ F L D +G + + P+ KV K + Y+ + +K + +
Sbjct: 121 INFLESSFLGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWREEESHKFTWK 180
Query: 485 IQRFKGLGEMMPVQLWE--TTLNPEQRMLKQLVIEDAAEANVVFSSLMGARVDTRKELIQ 542
+ +KGLG + ++ E + L+ ++ L D ++ FS + D RKE ++
Sbjct: 181 QKYYKGLGTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLAFSK---KKADDRKEWLR 237
>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 = 72.8 bits (177), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 43/103 (41%), Positives = 58/103 (56%), Gaps = 5/103 (4%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LEV V R+ YHQ Y +G P L V + D+ GT IRF D ++FT
Sbjct: 86 NALSQDLEVYVHRNETIYHQAYKKGVPQFDLK----EVGTTDKTGTVIRFKADGEIFTET 141
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFF 136
+++ T+ RIRELAFLN + I LR E D E + + Y +
Sbjct: 142 TVYNYETLQQRIRELAFLNKGIQITLRDE-RDEENVREDSYHY 183
>pdb|4GFH|A Chain A, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1103
Score = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 82/312 (26%), Positives = 133/312 (42%), Gaps = 47/312 (15%)
Query: 154 LHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNS 213
L++ + R +V D++ Q S + NSI T GGTH+ + + + ++
Sbjct: 257 LYERINNRWEVAFAVSDISFQQIS---------FVNSIATTMGGTHVNYITDQIVKKISE 307
Query: 214 LGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVD-QSVQ 272
+ KK K K ++ + I+ + NP F QTK +L +V D S
Sbjct: 308 ILKKKKKKSVKSF-----QIKNNMFIFINCLIENPAFTSQTKEQL----TTRVKDFGSRC 358
Query: 273 EYLTEYLELHPDVXXXXXXXXXXXXXXXXXXXXXXXXVRQKSVLRSSSLPGKLADCSSTT 332
E EY+ + + R ++ P KL D +
Sbjct: 359 EIPLEYIN----------------KIMKTDLATRMFEIADANESRITNYP-KLEDANKAG 401
Query: 333 PEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKNEE 384
+E + + EGDSA G A GRD + PLRGK+LNV + KN E
Sbjct: 402 TKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKMLNVREASADQILKNAE 459
Query: 385 IQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD-EG 443
IQ + + +GL + + ++LRY ++I+TD D DG+HI+ L++ F L D +G
Sbjct: 460 IQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLIINFLESSFPGLLDIQG 519
Query: 444 CIYVGVPPLYKV 455
+ + P+ KV
Sbjct: 520 FLLEFITPIIKV 531
>pdb|4GFH|F Chain F, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1099
Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 83/314 (26%), Positives = 134/314 (42%), Gaps = 55/314 (17%)
Query: 154 LHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNS 213
L++ + R +V D++ Q S + NSI T GGTH+ + + + ++
Sbjct: 257 LYERINNRWEVAFAVSDISFQQIS---------FVNSIATTMGGTHVNYITDQIVKKISE 307
Query: 214 LGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVD-QSVQ 272
+ KK K K ++ + I+ + NP F QTK +L +V D S
Sbjct: 308 ILKKKKKKSVKSF-----QIKNNMFIFINCLIENPAFTSQTKEQL----TTRVKDFGSRC 358
Query: 273 EYLTEYLE--LHPDVXXXXXXXXXXXXXXXXXXXXXXXXVRQKSVLRSSSLPGKLADCSS 330
E EY+ + D+ R ++ P KL D +
Sbjct: 359 EIPLEYINKIMKTDLATRMFEIAS----------------------RITNYP-KLEDANK 395
Query: 331 TTPEES---EIFIVEGDSA-----GGSAKQGRDRRFQAILPLRGKILNVERKDEAAMYKN 382
+E + + EGDSA G A GRD + PLRGK+LNV + KN
Sbjct: 396 AGTKEGYKCTLVLTEGDSALSLAVAGLAVVGRD--YYGCYPLRGKMLNVREASADQILKN 453
Query: 383 EEIQNLIRALGLGVKGEDFKKEALRYHKIIILTDADVDGAHIRTLLLTFFYRYQKTLFD- 441
EIQ + + +GL + + ++LRY ++I+TD D DG+HI+ L++ F L D
Sbjct: 454 AEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLIINFLESSFPGLLDI 513
Query: 442 EGCIYVGVPPLYKV 455
+G + + P+ KV
Sbjct: 514 QGFLLEFITPIIKV 527
>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 = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 38/108 (35%), Positives = 58/108 (53%), Gaps = 9/108 (8%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP + FT
Sbjct: 111 NALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNV 166
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLE 141
+F++ +A R+REL+FLN ++I LR + E ++F GLE
Sbjct: 167 TEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKE-----DHFHYEGLE 209
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 36/99 (36%), Positives = 54/99 (54%), Gaps = 5/99 (5%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP + FT
Sbjct: 124 NALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNV 179
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALR-KEDSDPEKNQY 131
+F++ +A R+REL+FLN ++I LR K D + Y
Sbjct: 180 TEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHY 218
>pdb|1KZN|A Chain A, Crystal Structure Of E. Coli 24kda Domain In Complex With
Clorobiocin
Length = 205
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 36/99 (36%), Positives = 54/99 (54%), Gaps = 5/99 (5%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP + FT
Sbjct: 110 NALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNV 165
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALR-KEDSDPEKNQY 131
+F++ +A R+REL+FLN ++I LR K D + Y
Sbjct: 166 TEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHY 204
>pdb|3G7E|A Chain A, Crystal Structure Of E. Coli Gyrase B Co-Complexed With
Inhibitor
Length = 203
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/87 (37%), Positives = 50/87 (57%), Gaps = 4/87 (4%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LE+ + R+G + Q Y G P L ++ GT +RFWP + FT
Sbjct: 110 NALSQKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNV 165
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALR 120
+F++ +A R+REL+FLN ++I LR
Sbjct: 166 TEFEYEILAKRLRELSFLNSGVSIRLR 192
>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 = 68.6 bits (166), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 53/99 (53%), Gaps = 5/99 (5%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ LE+ + +G + Q Y G P L ++ GT +RFWP + FT
Sbjct: 123 NALSQKLELVIQHEGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNV 178
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALR-KEDSDPEKNQY 131
+F++ +A R+REL+FLN ++I LR K D + Y
Sbjct: 179 TEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHY 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 = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 39/93 (41%), Positives = 56/93 (60%), Gaps = 4/93 (4%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSR-GKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 92
NALS LEV + RDG Y Q++ GKPVTTL + K + GT++ F PD +F+T
Sbjct: 128 NALSSWLEVEITRDGAVYKQRFENGGKPVTTLKK--IGTALKSKTGTKVTFMPDATIFST 185
Query: 93 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSD 125
F +NTI+ R+ E AFL +T++L + +D
Sbjct: 186 T-DFKYNTISERLNESAFLLKNVTLSLTDKRTD 217
>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 = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 38/89 (42%), Positives = 48/89 (53%), Gaps = 6/89 (6%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS LE TV RDG E+ Q Y R P + GT IRFW D ++F T
Sbjct: 102 NALSTRLEATVLRDGYEWFQYYDRSVP-----GKLKQGGETKETGTTIRFWADPEIFETT 156
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKE 122
++ T+A R++E+AFLN LTI L E
Sbjct: 157 -DYNFETVARRLQEMAFLNKGLTIELTDE 184
>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 = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 39/98 (39%), Positives = 55/98 (56%), Gaps = 5/98 (5%)
Query: 34 NALSESLEVTVWRDGMEYHQKYS-RGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 92
NALS+ LEV + RDG+EY +++ GKPV TL +K R GT + F PD +F+T
Sbjct: 109 NALSKWLEVHIVRDGVEYMERFEDGGKPVGTLKK---IGKTKKRNGTSVTFLPDDTIFST 165
Query: 93 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQ 130
F + +A R+RE AFL + I L E + K +
Sbjct: 166 T-NFSYEILAERLRESAFLLKGVKITLTDERGEEPKEE 202
>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 = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 49/95 (51%), Gaps = 3/95 (3%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ +EV V RDG Y+ + G+ V L V+ K GT + FWPD+ F +
Sbjct: 109 NALSKRVEVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETFFDSP 166
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEK 128
+F + + ++ A L P + I + E ++ E+
Sbjct: 167 -RFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQ 200
>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 = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 49/95 (51%), Gaps = 3/95 (3%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ +EV V RDG Y+ + G+ V L V+ K GT + FWPD+ F +
Sbjct: 106 NALSKRVEVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETFFDSP 163
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEK 128
+F + + ++ A L P + I + E ++ E+
Sbjct: 164 -RFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQ 197
>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 = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 49/95 (51%), Gaps = 3/95 (3%)
Query: 34 NALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTA 93
NALS+ +EV V RDG Y+ + G+ V L V+ K GT + FWPD+ F +
Sbjct: 97 NALSKRVEVNVRRDGQVYNIAFENGEKVQDL--QVVGTCGKRNTGTSVHFWPDETFFDSP 154
Query: 94 IQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEK 128
+F + + ++ A L P + I + E ++ E+
Sbjct: 155 -RFSVSRLTHVLKAKAVLCPGVEITFKDEINNTEQ 188
>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 = 0.064, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 5/75 (6%)
Query: 185 LGYANSIRTIDGGTHIEGVKASL-TRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISV 243
+ + NSI T GG H++ V + T+ ++ + KK+K +++ V+ + ++
Sbjct: 283 ISFVNSIATSKGGRHVDYVADQIVTKLVDVVKKKNKG----GVAVKAHQVKNHMWIFVNA 338
Query: 244 RVPNPEFEGQTKTRL 258
+ NP F+ QTK +
Sbjct: 339 LIENPTFDSQTKENM 353
>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 = 1.6, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 9/60 (15%)
Query: 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGT----HIEGVKASLTRTLNSLG 215
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 = 1.8, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 9/60 (15%)
Query: 160 FRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGT----HIEGVKASLTRTLNSLG 215
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 = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 84 WPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDS 124
+P F TA + +AG++ P L+IALRK+ S
Sbjct: 123 YPLNYAFNTAGEITQGILAGKVNRAVLGEPFLSIALRKDSS 163
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
0.318 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,741,229
Number of Sequences: 62578
Number of extensions: 597863
Number of successful extensions: 1619
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1518
Number of HSP's gapped (non-prelim): 51
length of query: 555
length of database: 14,973,337
effective HSP length: 104
effective length of query: 451
effective length of database: 8,465,225
effective search space: 3817816475
effective search space used: 3817816475
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: 54 (25.4 bits)