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= psy8714
(562 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ECL|A Chain A, Amino Terminal 67kda Domain Of Escherichia Coli Dna
Topoisomerase I (Residues 2-590 Of Mature Protein)
Cloning Artifact Adds Two Residues To The Amino-Terminus
Which Were Not Observed In The Experimental Electron
Density (Gly-2, Ser-1)
Length = 597
Score = 115 bits (288), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 120/471 (25%), Positives = 195/471 (41%), Gaps = 34/471 (7%)
Query: 93 KLKLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAIT 152
K K+ + L A+ + + L D D+EGE I + + E + S R F+ IT
Sbjct: 89 KEKVVSELKQLAEKADHIYLATDLDREGEAIAWHLREVIGGDDARYS-----RVVFNEIT 143
Query: 153 DKDIKAAMWNLVKPNIFEARSVDARQELDLRIGCAFTRYQTKFFQGKYGDLDASLISYGP 212
I+ A + NI + AR+ +D +G + K A +S G
Sbjct: 144 KNAIRQAFNKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKI--------ARGLSAGR 195
Query: 213 CQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNL---NGVAVSVTWSRGHIF---DKSTCN 266
Q+ + VER +I+ F PE +W +D + +A+ VT F +K
Sbjct: 196 VQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQ 255
Query: 267 VFFKAVEKEKHVTVVDVQSSTKSKTKPQA-LNTVELMRVASSGLGMGPHHAMQIAERLYT 325
+EK ++ + T SK P A T L + AS+ LG G M +A+RLY
Sbjct: 256 AAVSLLEKARYSVLEREDKPTTSK--PGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYE 313
Query: 326 QGYVSYPRTETTQYPENFDLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGDHPPI 385
GY++Y RT++T + D V ++R S ++ E + S KG H I
Sbjct: 314 AGYITYMRTDSTNLSQ--DAVNMVRGYISDNFGKKYLPESPNQYAS---KGNSQEAHEAI 368
Query: 386 TPTKLATRTQ----LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKY 441
P+ + + ++ DA +LY I R F+ Y D +
Sbjct: 369 RPSDVNVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRI 428
Query: 442 LLHPGFTGVMTWSAMKNES--IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLMEK 499
L G+T VM +E +P GD + + + + T PP +E+ L+ +EK
Sbjct: 429 LRFDGWTKVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEK 488
Query: 500 HGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVHGYQKIDRELV 550
GIG ++ I+ I R YV V + RR +G ++ ++ REL+
Sbjct: 489 RGIGRPSTYASIISTIQDRGYVRVEN-RRFYAEKMGEIVTDRLEENFRELM 538
>pdb|1CY1|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'ptptpt
pdb|1CY2|A Chain A, Complex Of E.Coli Dna Topoisomerase I With Tptptp3'
pdb|1CY6|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 3' Thymidine
Monophosphate
pdb|1CY7|A Chain A, Complex Of E.coli Dna Topoisomerase I With 5'-thymidine
Monophosphate
pdb|1CY8|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'-Thymidine
Monophosphate And 3'-Thymidine Monophosphate
pdb|1CY0|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 3'-5'-Adenosine
Diphosphate
pdb|1CY4|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'ptptptp3'
Length = 599
Score = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 118/471 (25%), Positives = 195/471 (41%), Gaps = 34/471 (7%)
Query: 93 KLKLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAIT 152
K K+ + L A+ + + L D D+EGE I + + E + S R F+ IT
Sbjct: 91 KEKVVSELKQLAEKADHIYLATDLDREGEAIAWHLREVIGGDDARYS-----RVVFNEIT 145
Query: 153 DKDIKAAMWNLVKPNIFEARSVDARQELDLRIGCAFTRYQTKFFQGKYGDLDASLISYGP 212
I+ A + NI + AR+ +D +G + K A +S G
Sbjct: 146 KNAIRQAFNKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKI--------ARGLSAGR 197
Query: 213 CQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNL---NGVAVSVTWSRGHIF---DKSTCN 266
Q+ + VER +I+ F PE +W +D + +A+ VT F +K
Sbjct: 198 VQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQ 257
Query: 267 VFFKAVEKEKHVTVVDVQSSTKSKTKPQA-LNTVELMRVASSGLGMGPHHAMQIAERLYT 325
+EK ++ + T SK P A T L + AS+ LG G M +A+RLY
Sbjct: 258 AAVSLLEKARYSVLEREDKPTTSK--PGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYE 315
Query: 326 QGYVSYPRTETTQYPENFDLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGDHPPI 385
GY++Y RT++T + D V ++R S ++G N + ++ H I
Sbjct: 316 AGYITYMRTDSTNLSQ--DAVNMVRGY-ISDNFGKKYLPESPNQYASKENSQEA--HEAI 370
Query: 386 TPTKLATRTQ----LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKY 441
P+ + + ++ DA +LY I R F+ Y D +
Sbjct: 371 RPSDVNVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRI 430
Query: 442 LLHPGFTGVMTWSAMKNES--IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLMEK 499
L G+T VM +E +P GD + + + + T PP +E+ L+ +EK
Sbjct: 431 LRFDGWTKVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEK 490
Query: 500 HGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVHGYQKIDRELV 550
GIG ++ I+ I R YV V + RR +G ++ ++ REL+
Sbjct: 491 RGIGRPSTYASIISTIQDRGYVRVEN-RRFYAEKMGEIVTDRLEENFRELM 540
>pdb|3PWT|A Chain A, Crystal Structure Of Mutant E.Coli Topoisomerase Ia
Length = 596
Score = 111 bits (278), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 117/471 (24%), Positives = 195/471 (41%), Gaps = 34/471 (7%)
Query: 93 KLKLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAIT 152
K K+ + L A+ + + L + D+EGE I + + E + S R F+ IT
Sbjct: 89 KEKVVSELKQLAEKADHIYLATNLDREGEAIAWHLREVIGGDDARYS-----RVVFNEIT 143
Query: 153 DKDIKAAMWNLVKPNIFEARSVDARQELDLRIGCAFTRYQTKFFQGKYGDLDASLISYGP 212
I+ A + NI + AR+ +D +G + K A +S G
Sbjct: 144 KNAIRQAFNKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKI--------ARGLSAGR 195
Query: 213 CQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNL---NGVAVSVTWSRGHIF---DKSTCN 266
Q+ + VER +I+ F PE +W +D + +A+ VT F +K
Sbjct: 196 VQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQ 255
Query: 267 VFFKAVEKEKHVTVVDVQSSTKSKTKPQA-LNTVELMRVASSGLGMGPHHAMQIAERLYT 325
+EK ++ + T SK P A T L + AS+ LG G M +A+RLY
Sbjct: 256 AAVSLLEKARYSVLEREDKPTTSK--PGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYE 313
Query: 326 QGYVSYPRTETTQYPENFDLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGDHPPI 385
GY++Y RT++T + D V ++R S ++G N + ++ H I
Sbjct: 314 AGYITYMRTDSTNLSQ--DAVNMVRGY-ISDNFGKKYLPESPNQYASKENSQEA--HEAI 368
Query: 386 TPTKLATRTQ----LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKY 441
P+ + + ++ DA +LY I R F+ Y D +
Sbjct: 369 RPSDVNVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRI 428
Query: 442 LLHPGFTGVMTWSAMKNES--IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLMEK 499
L G+T VM +E +P GD + + + + T PP +E+ L+ +EK
Sbjct: 429 LRFDGWTKVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEK 488
Query: 500 HGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVHGYQKIDRELV 550
GIG ++ I+ I R YV V + RR +G ++ ++ REL+
Sbjct: 489 RGIGRPSTYASIISTIQDRGYVRVEN-RRFYAEKMGEIVTDRLEENFRELM 538
>pdb|1MW8|X Chain X, Crystal Structure Of A Complex Between H365r Mutant Of 67
Kda N-Terminal Fragment Of E. Coli Dna Topoisomerase I
And 5'-Acttcgggatg-3'
pdb|1MW9|X Chain X, Crystal Structure Of H365r Mutant Of 67 Kda N-Terminal
Fragment Of E. Coli Dna Topoisomerase I
Length = 592
Score = 110 bits (274), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 117/471 (24%), Positives = 195/471 (41%), Gaps = 34/471 (7%)
Query: 93 KLKLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAIT 152
K K+ + L A+ + + L D D+EGE I + + E + S R F+ IT
Sbjct: 89 KEKVVSELKQLAEKADHIYLATDLDREGEAIAWHLREVIGGDDARYS-----RVVFNEIT 143
Query: 153 DKDIKAAMWNLVKPNIFEARSVDARQELDLRIGCAFTRYQTKFFQGKYGDLDASLISYGP 212
I+ A + NI + AR+ +D +G + K A +S G
Sbjct: 144 KNAIRQAFNKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKI--------ARGLSAGR 195
Query: 213 CQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNL---NGVAVSVTWSRGHIF---DKSTCN 266
Q+ + VER +I+ F PE +W +D + +A+ VT F +K
Sbjct: 196 VQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQ 255
Query: 267 VFFKAVEKEKHVTVVDVQSSTKSKTKPQA-LNTVELMRVASSGLGMGPHHAMQIAERLYT 325
+EK ++ + T SK P A T L + AS+ LG G M +A+RLY
Sbjct: 256 AAVSLLEKARYSVLEREDKPTTSK--PGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYE 313
Query: 326 QGYVSYPRTETTQYPENFDLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGDHPPI 385
GY++Y RT++T + D V ++R S ++G N + ++ + I
Sbjct: 314 AGYITYMRTDSTNLSQ--DAVNMVRGY-ISDNFGKKYLPESPNQYASKENSQEARE--AI 368
Query: 386 TPTKLATRTQ----LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKY 441
P+ + + ++ DA +LY I R F+ Y D +
Sbjct: 369 RPSDVNVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRI 428
Query: 442 LLHPGFTGVMTWSAMKNES--IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLMEK 499
L G+T VM +E +P GD + + + + T PP +E+ L+ +EK
Sbjct: 429 LRFDGWTKVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEK 488
Query: 500 HGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVHGYQKIDRELV 550
GIG ++ I+ I R YV V + RR +G ++ ++ REL+
Sbjct: 489 RGIGRPSTYASIISTIQDRGYVRVEN-RRFYAEKMGEIVTDRLEENFRELM 538
>pdb|3PX7|A Chain A, Crystal Structure Of Covalent Complex Of Topoisomerase 1a
With Substrate
Length = 595
Score = 108 bits (269), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 116/471 (24%), Positives = 194/471 (41%), Gaps = 34/471 (7%)
Query: 93 KLKLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAIT 152
K K+ + L A+ + + L + D+EGE I + + E + S R F+ IT
Sbjct: 89 KEKVVSELKQLAEKADHIYLATNLDREGEAIAWHLREVIGGDDARYS-----RVVFNEIT 143
Query: 153 DKDIKAAMWNLVKPNIFEARSVDARQELDLRIGCAFTRYQTKFFQGKYGDLDASLISYGP 212
I+ A + NI + AR+ +D +G + K A +S G
Sbjct: 144 KNAIRQAFNKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKI--------ARGLSAGR 195
Query: 213 CQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNL---NGVAVSVTWSRGHIF---DKSTCN 266
Q+ + VER +I+ F PE +W +D + +A+ VT F +K
Sbjct: 196 VQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQ 255
Query: 267 VFFKAVEKEKHVTVVDVQSSTKSKTKPQA-LNTVELMRVASSGLGMGPHHAMQIAERLYT 325
+EK ++ + T SK P A T L + AS+ LG G M +A+RLY
Sbjct: 256 AAVSLLEKARYSVLEREDKPTTSK--PGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYE 313
Query: 326 QGYVSYPRTETTQYPENFDLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGDHPPI 385
GY++ RT++T + D V ++R S ++G N + ++ H I
Sbjct: 314 AGYITXMRTDSTNLSQ--DAVNMVRGY-ISDNFGKKYLPESPNQYASKENSQEA--HEAI 368
Query: 386 TPTKLATRTQ----LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKY 441
P+ + + ++ DA +LY I R F+ Y D +
Sbjct: 369 RPSDVNVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRI 428
Query: 442 LLHPGFTGVMTWSAMKNES--IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLMEK 499
L G+T VM +E +P GD + + + + T PP +E+ L+ +EK
Sbjct: 429 LRFDGWTKVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEK 488
Query: 500 HGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVHGYQKIDRELV 550
GIG ++ I+ I R YV V + RR +G ++ ++ REL+
Sbjct: 489 RGIGRPSTYASIISTIQDRGYVRVEN-RRFYAEKMGEIVTDRLEENFRELM 538
>pdb|2GAI|A Chain A, Structure Of Full Length Topoisomerase I From Thermotoga
Maritima In Triclinic Crystal Form
pdb|2GAI|B Chain B, Structure Of Full Length Topoisomerase I From Thermotoga
Maritima In Triclinic Crystal Form
pdb|2GAJ|A Chain A, Structure Of Full Length Topoisomerase I From Thermotoga
Maritima In Monoclinic Crystal Form
pdb|2GAJ|B Chain B, Structure Of Full Length Topoisomerase I From Thermotoga
Maritima In Monoclinic Crystal Form
Length = 633
Score = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 112/468 (23%), Positives = 197/468 (42%), Gaps = 46/468 (9%)
Query: 93 KLKLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAIT 152
K K+ L + AK E L+ D D+EGE I + + N+ R FS IT
Sbjct: 63 KEKVVEKLKDLAKKGELLIAS-DMDREGEAIAWHIARVT------NTLGRKNRIVFSEIT 115
Query: 153 DKDIKAAMWNLVKPNIFEARSVDARQELDLRIGCAFTRYQTKFFQGKYGDLDASLISYGP 212
+ I+ A+ N + ++ + R+ AR+ LD +G + + + F+ S +S G
Sbjct: 116 PRVIREAVKNPREIDMKKVRAQLARRILDRIVGYSLSPVLWRNFK--------SNLSAGR 167
Query: 213 CQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNLNGVAVSVTWSRGHIFDKSTCNVFFKAV 272
Q+ TL +R +I F P+ Y + T+N +G+ + FD T K +
Sbjct: 168 VQSATLKLVCDREREILRFVPKKYHRI--TVNFDGLTAEIDVKEKKFFDAET----LKEI 221
Query: 273 EKEKHVTVVDVQSSTKSKTKPQALNTVELMRVASSGLGMGPHHAMQIAERLYTQ------ 326
+ + V + + S K P+ T L + A S LG M IA++LY
Sbjct: 222 QSIDELVVEEKKVSVKKFAPPEPFKTSTLQQEAYSKLGFSVSKTMMIAQQLYEGVETKDG 281
Query: 327 --GYVSYPRTETTQYPENFDLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGD-HP 383
+++Y RT++T+ D + + +G+ E + + + + + D H
Sbjct: 282 HIAFITYMRTDSTRVS---DYAKEEARNLITEVFGE---EYVGSKRERRKSNAKIQDAHE 335
Query: 384 PITPTKLATRTQ-----LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTME 438
I PT + + L+ D +LY+ I + F+ + Y + D + +
Sbjct: 336 AIRPTNVFMTPEEAGKYLNSDQKKLYELIWKRFLASQMKPSQYEETRFVLRTKDGKYRFK 395
Query: 439 AKYL--LHPGFTGVMTWSAMKNESIPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISL 496
L + G+ V W +N F+ G+ + VK+ E++T P TE L+
Sbjct: 396 GTVLKKIFDGYEKV--WKTERNTGEFPFEEGESVKPVVVKIEEQETKPKPRYTEGSLVKE 453
Query: 497 MEKHGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVHGYQK 544
ME+ GIG ++ I + R Y+ G L PT +G V++ +K
Sbjct: 454 MERLGIGRPSTYASTIKLLLNRGYIKKIRG-YLYPTIVGSVVMDYLEK 500
>pdb|2O19|A Chain A, Structure Of E. Coli Topoisomersae Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glycerol At Ph 5.5
pdb|2O19|B Chain B, Structure Of E. Coli Topoisomersae Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glycerol At Ph 5.5
pdb|2O54|A Chain A, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glycerol At Ph 7.0
pdb|2O54|B Chain B, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glycerol At Ph 7.0
pdb|2O59|A Chain A, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glycerol Ph 8.0
pdb|2O59|B Chain B, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glycerol Ph 8.0
pdb|2O5C|A Chain A, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glucose Ph 5.5
pdb|2O5C|B Chain B, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glucose Ph 5.5
pdb|2O5E|A Chain A, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glucose Ph 7.0
pdb|2O5E|B Chain B, Structure Of E. Coli Topoisomerase Iii In Complex With An
8- Base Single Stranded Oligonucleotide. Frozen In
Glucose Ph 7.0
Length = 659
Score = 87.0 bits (214), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 112/526 (21%), Positives = 210/526 (39%), Gaps = 70/526 (13%)
Query: 65 FTSKYNNWDKVD-PLELFSCPTEKREA-TPKLKLPAFLANEAKDCEFLVLWLDCDKEGEN 122
+ S+Y W+ D P+ + R + T +L + +EA + +V D D+EG+
Sbjct: 54 YDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASE---IVHAGDPDREGQL 110
Query: 123 ICFEVMEAVRHQININSPKTVWRARFSAITDKDIKAAMWNLVKPNIFEARSVDA--RQEL 180
+ EV++ + Q+ + V R + + + ++ A+ L + F V A R
Sbjct: 111 LVDEVLDYL--QLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARA 168
Query: 181 DLRIGCAFTRYQTKF-----FQGKYGDLDASLISYGPCQTPTLGFCVERHDKIRTFKPEP 235
D G TR T +QG ++S G QTP LG V R ++I F +
Sbjct: 169 DWLYGINMTRAYTILGRNAGYQG--------VLSVGRVQTPVLGLVVRRDEEIENFVAKD 220
Query: 236 YWLLDL-TLNLNGVAVSVTWS-----------RGHIFDKSTCNVFFKAVEKEKHVTVVDV 283
++ + + + W G + + + + + V
Sbjct: 221 FFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAI-VTSY 279
Query: 284 QSSTKSKTKPQALNTVELMRVASSGLGMGPHHAMQIAERLY-TQGYVSYPRTETTQYPE- 341
+S++ P + L A+ G+ + + I ++LY T ++YPR++ PE
Sbjct: 280 NDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITYPRSDCRYLPEE 339
Query: 342 NFDLVAVLRQQESSPDWGDHVREVLSNGISKPR------KGKDVGDHPPITPTKLATRTQ 395
+F + S H ++L + P K V H I PT ++
Sbjct: 340 HFAGRHAVMNAISV-----HAPDLLPQPVVDPDIRNRCWDDKKVDAHHAIIPTARSSAIN 394
Query: 396 LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKYLLHPGFTGVMTWSA 455
L + ++Y+ I R ++ C D V+ + V + +A F +A++L G+ ++
Sbjct: 395 LTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKE 454
Query: 456 MKNES----IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLM-------------- 497
E+ +P GD + + ++VER+T PP + T++ L+S M
Sbjct: 455 RDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKK 514
Query: 498 ---EKHGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVH 540
G+GT+A+ I + +R ++T GR + T G L H
Sbjct: 515 ILRATDGLGTEATRAGIIELLFKRGFLT-KKGRYIHSTDAGKALFH 559
>pdb|1D6M|A Chain A, Crystal Structure Of E. Coli Dna Topoisomerase Iii
Length = 653
Score = 87.0 bits (214), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 112/526 (21%), Positives = 210/526 (39%), Gaps = 70/526 (13%)
Query: 65 FTSKYNNWDKVD-PLELFSCPTEKREA-TPKLKLPAFLANEAKDCEFLVLWLDCDKEGEN 122
+ S+Y W+ D P+ + R + T +L + +EA + +V D D+EG+
Sbjct: 54 YDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASE---IVHAGDPDREGQL 110
Query: 123 ICFEVMEAVRHQININSPKTVWRARFSAITDKDIKAAMWNLVKPNIFEARSVDA--RQEL 180
+ EV++ + Q+ + V R + + + ++ A+ L + F V A R
Sbjct: 111 LVDEVLDYL--QLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARA 168
Query: 181 DLRIGCAFTRYQTKF-----FQGKYGDLDASLISYGPCQTPTLGFCVERHDKIRTFKPEP 235
D G TR T +QG ++S G QTP LG V R ++I F +
Sbjct: 169 DWLYGINMTRAYTILGRNAGYQG--------VLSVGRVQTPVLGLVVRRDEEIENFVAKD 220
Query: 236 YWLLDL-TLNLNGVAVSVTWS-----------RGHIFDKSTCNVFFKAVEKEKHVTVVDV 283
++ + + + W G + + + + + V
Sbjct: 221 FFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAI-VTSY 279
Query: 284 QSSTKSKTKPQALNTVELMRVASSGLGMGPHHAMQIAERLY-TQGYVSYPRTETTQYPE- 341
+S++ P + L A+ G+ + + I ++LY T ++YPR++ PE
Sbjct: 280 NDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITYPRSDCRYLPEE 339
Query: 342 NFDLVAVLRQQESSPDWGDHVREVLSNGISKPR------KGKDVGDHPPITPTKLATRTQ 395
+F + S H ++L + P K V H I PT ++
Sbjct: 340 HFAGRHAVMNAISV-----HAPDLLPQPVVDPDIRNRCWDDKKVDAHHAIIPTARSSAIN 394
Query: 396 LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKYLLHPGFTGVMTWSA 455
L + ++Y+ I R ++ C D V+ + V + +A F +A++L G+ ++
Sbjct: 395 LTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKE 454
Query: 456 MKNES----IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLM-------------- 497
E+ +P GD + + ++VER+T PP + T++ L+S M
Sbjct: 455 RDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKK 514
Query: 498 ---EKHGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVH 540
G+GT+A+ I + +R ++T GR + T G L H
Sbjct: 515 ILRATDGLGTEATRAGIIELLFKRGFLT-KKGRYIHSTDAGKALFH 559
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 85.5 bits (210), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 119/495 (24%), Positives = 203/495 (41%), Gaps = 104/495 (21%)
Query: 85 TEKREATPKL----------KLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQ 134
TE RE+ PK ++ A L A D EF+++ D D EGE I +++
Sbjct: 592 TEDRESCPKCGSENVDNSRSRIEA-LRKLAHDAEFVIVGTDPDTEGEKIAWDLKNL---- 646
Query: 135 ININSPKTVWRARFSAITDKDIKAAMWNL--VKPNIFEARSVDARQELDLRIGCAFTRYQ 192
++ V RA F +T + I A+ +L V N+ +A+ V R+ D IG ++
Sbjct: 647 --LSGCGAVKRAEFHEVTRRAILEALESLRDVDENLVKAQVV--RRIEDRWIGFVLSQKL 702
Query: 193 TKFFQGKYGDLDASLISYGPCQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNLNGVAVSV 252
+ F + +S G QT LG+ ++R + R
Sbjct: 703 WERFNNRN-------LSAGRAQTLVLGWIIDRFQESR----------------------- 732
Query: 253 TWSRGHIFDKSTCNVFFKAVEKEKHVTVVDVQSSTKSKTKPQALNTVELMRVASSGLGMG 312
R I ++ + E+E +T+ V+ + +T T ++ A+ L
Sbjct: 733 --ERRKIAIVRDFDLVLEHDEEEFDLTIKLVEEREELRTPLPPYTTETMLSDANRILKFS 790
Query: 313 PHHAMQIAERLYTQGYVSYPRTETTQYPENFDLVAVLRQQESSPDWGDHVREVLSNGISK 372
MQIA+ L+ G ++Y RT++T+ V+ + Q+ + GD
Sbjct: 791 VKQTMQIAQELFENGLITYHRTDSTR-------VSDVGQRIAKEYLGDDF---------V 834
Query: 373 PRKGKDVGDHPPITPTKLATRTQ-----------LDGDAWR---LYDYIVRHFIGTLCGD 418
R+ + G H I PT+ TR ++G W LYD I R F+ + C
Sbjct: 835 GREWGESGAHECIRPTRPLTRDDVQRLIQEGVLVVEGLRWEHFALYDLIFRRFMASQCRP 894
Query: 419 LVYTQKVAKFSVADEMFTMEAKYLLHPGFTGVMTWSA--MKNESIPDFKPGDLIPIQSVK 476
+ V K+S+ + T E + ++ + A +KNE +P + +
Sbjct: 895 --FKVVVKKYSIEFDGKTAEEERIVRAEGRAYELYRAVWVKNE----------LPTGTFR 942
Query: 477 MVERKTTPPDYL--TESELISLMEKHGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSL 534
+ + P L T+SE+I +M++ GIG ++ ++ + RNYV G R++PT L
Sbjct: 943 VKAEVKSVPKVLPFTQSEIIQMMKERGIGRPSTYATIVDRLFMRNYVVEKYG-RMIPTKL 1001
Query: 535 GI----VLVHGYQKI 545
GI LV Y K
Sbjct: 1002 GIDVFRFLVRRYAKF 1016
>pdb|1I7D|A Chain A, Noncovalent Complex Of E.Coli Dna Topoisomerase Iii With
An 8-Base Single-Stranded Dna Oligonucleotide
Length = 659
Score = 85.5 bits (210), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 111/526 (21%), Positives = 210/526 (39%), Gaps = 70/526 (13%)
Query: 65 FTSKYNNWDKVD-PLELFSCPTEKREA-TPKLKLPAFLANEAKDCEFLVLWLDCDKEGEN 122
+ S+Y W+ D P+ + R + T +L + +EA + +V D D+EG+
Sbjct: 54 YDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASE---IVHAGDPDREGQL 110
Query: 123 ICFEVMEAVRHQININSPKTVWRARFSAITDKDIKAAMWNLVKPNIFEARSVDA--RQEL 180
+ EV++ + Q+ + V R + + + ++ A+ L + F V A R
Sbjct: 111 LVDEVLDYL--QLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARA 168
Query: 181 DLRIGCAFTRYQTKF-----FQGKYGDLDASLISYGPCQTPTLGFCVERHDKIRTFKPEP 235
D G TR T +QG ++S G QTP LG V R ++I F +
Sbjct: 169 DWLYGINMTRAYTILGRNAGYQG--------VLSVGRVQTPVLGLVVRRDEEIENFVAKD 220
Query: 236 YWLLDL-TLNLNGVAVSVTWS-----------RGHIFDKSTCNVFFKAVEKEKHVTVVDV 283
++ + + + W G + + + + + V
Sbjct: 221 FFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAI-VTSY 279
Query: 284 QSSTKSKTKPQALNTVELMRVASSGLGMGPHHAMQIAERLY-TQGYVSYPRTETTQYPE- 341
+S++ P + L A+ G+ + + I ++LY T +++PR++ PE
Sbjct: 280 NDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITFPRSDCRYLPEE 339
Query: 342 NFDLVAVLRQQESSPDWGDHVREVLSNGISKPR------KGKDVGDHPPITPTKLATRTQ 395
+F + S H ++L + P K V H I PT ++
Sbjct: 340 HFAGRHAVMNAISV-----HAPDLLPQPVVDPDIRNRCWDDKKVDAHHAIIPTARSSAIN 394
Query: 396 LDGDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKYLLHPGFTGVMTWSA 455
L + ++Y+ I R ++ C D V+ + V + +A F +A++L G+ ++
Sbjct: 395 LTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKE 454
Query: 456 MKNES----IPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLM-------------- 497
E+ +P GD + + ++VER+T PP + T++ L+S M
Sbjct: 455 RDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKK 514
Query: 498 ---EKHGIGTDASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVH 540
G+GT+A+ I + +R ++T GR + T G L H
Sbjct: 515 ILRATDGLGTEATRAGIIELLFKRGFLT-KKGRYIHSTDAGKALFH 559
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 85.5 bits (210), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 118/497 (23%), Positives = 200/497 (40%), Gaps = 108/497 (21%)
Query: 85 TEKREATPKL----------KLPAFLANEAKDCEFLVLWLDCDKEGENICFEVMEAVRHQ 134
TE RE+ PK ++ A L A D EF+++ D D EGE I +++
Sbjct: 592 TEDRESCPKCGSENVDNSRSRIEA-LRKLAHDAEFVIVGTDPDTEGEKIAWDLKNL---- 646
Query: 135 ININSPKTVWRARFSAITDKDIKAAMWNL--VKPNIFEARSVDARQELDLRIGCAFTRYQ 192
++ V RA F +T + I A+ +L V N+ +A+ V R+ D IG ++
Sbjct: 647 --LSGCGAVKRAEFHEVTRRAILEALESLRDVDENLVKAQVV--RRIEDRWIGFVLSQKL 702
Query: 193 TKFFQGKYGDLDASLISYGPCQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNLNGVAVSV 252
+ F + +S G QT LG+ ++R + R
Sbjct: 703 WERFNNRN-------LSAGRAQTLVLGWIIDRFQESR----------------------- 732
Query: 253 TWSRGHIFDKSTCNVFFKAVEKEKHVTVVDVQSSTKSKTKPQALNTVELMRVASSGLGMG 312
R I ++ + E+E +T+ V+ + +T T ++ A+ L
Sbjct: 733 --ERRKIAIVRDFDLVLEHDEEEFDLTIKLVEEREELRTPLPPYTTETMLSDANRILKFS 790
Query: 313 PHHAMQIAERLYTQGYVSYPRTETTQYPENFDLVA--VLRQQESSPDWGDHVREVLSNGI 370
MQIA+ L+ G ++Y RT++T+ + +A L +WG+
Sbjct: 791 VKQTMQIAQELFENGLITYHRTDSTRVSDVGQRIAKEYLGDDFVGREWGES--------- 841
Query: 371 SKPRKGKDVGDHPPITPTKLATRTQ-----------LDGDAWR---LYDYIVRHFIGTLC 416
G H I PT+ TR ++G W LYD I R F+ + C
Sbjct: 842 ---------GAHECIRPTRPLTRDDVQRLIQEGVLVVEGLRWEHFALYDLIFRRFMASQC 892
Query: 417 GDLVYTQKVAKFSVADEMFTMEAKYLLHPGFTGVMTWSA--MKNESIPDFKPGDLIPIQS 474
+ V K+S+ + T E + ++ + A +KNE +P +
Sbjct: 893 RP--FKVVVKKYSIEFDGKTAEEERIVRAEGRAYELYRAVWVKNE----------LPTGT 940
Query: 475 VKMVERKTTPPDYL--TESELISLMEKHGIGTDASIPVHINNICQRNYVTVTSGRRLVPT 532
++ + P L T+SE+I +M++ GIG ++ ++ + RNYV G R++PT
Sbjct: 941 FRVKAEVKSVPKVLPFTQSEIIQMMKERGIGRPSTYATIVDRLFMRNYVVEKYG-RMIPT 999
Query: 533 SLGI----VLVHGYQKI 545
LGI LV Y K
Sbjct: 1000 KLGIDVFRFLVRRYAKF 1016
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered Orthorhombic
Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 104/472 (22%), Positives = 187/472 (39%), Gaps = 82/472 (17%)
Query: 106 DCEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAITDKDIKAAM----- 160
+ + +++ D D EGE I ++V Q + S +++ R IT K A
Sbjct: 659 EADEILVATDPDVEGEKISWDVT-----QYLLPSTRSLRRIEMHEITRYGFKKARESVRF 713
Query: 161 --WNLVKPNIFEARSVDARQELDLRIGCAFTRYQTKFFQGKYGDLDASLISYGPCQTPTL 218
+NLVK I R+ D IG + Q ++G S +S G Q+ L
Sbjct: 714 VDFNLVKAQI-------VRRVQDRWIGFELSGK----LQKRFG---RSNLSAGRVQSTVL 759
Query: 219 GFCVERHDKIRTFKPEPYWLLDLTLNLNGVAVSVTWSRGHIFDKSTCNVFFKAVEKEKHV 278
G+ VER ++ + + + + LL L NGV + V G I D V
Sbjct: 760 GWIVEREEEYKKSEKD-FTLLVLE---NGVNLEV---EGKIADDV--------------V 798
Query: 279 TVVDVQSSTKSKTKPQALNTVELMRVASSGLGMGPHHAMQIAERLYTQGYVSYPRTETTQ 338
TVV++Q + + K T + S L +G M I + L+ +G+++Y RT++T+
Sbjct: 799 TVVELQEAEEEKNPLPPYTTSSALSEISQKLRLGVQEVMDILQDLFEKGFITYHRTDSTR 858
Query: 339 YPENFDLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGDHPPITPTKLATRTQLD- 397
VA ++R++ I R G H I P K +L+
Sbjct: 859 ISLEGQNVA-----------RTYLRKIGKEDIFMGRSWSTEGAHEAIRPVKPIDARELEE 907
Query: 398 -----------GDAWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKY-LLHP 445
R+Y+ I F+ + + +++ V + +E +L
Sbjct: 908 MIEEGLIADLTKKHLRVYELIFNRFLASQSAAVKVKKQIVTVDVDGKRMGIEQIVEILRD 967
Query: 446 GFTGVMTWSAMKNESIPDFKPGDLIPIQSVKMVERKTTPPDYLTESELISLMEKHGIGTD 505
G+ + + P F+ + + T P T++ ++ M+K GIG
Sbjct: 968 GWNLFVPLTVS-----PRFEHRTYKIKEKKFYKKH-TVP--LFTQASIVEEMKKRGIGRP 1019
Query: 506 ASIPVHINNICQRNYVTVTSGRRLVPTSLGIVLVHGY--QKIDRELVEPTMR 555
++ + + +R YV +R+ PT G V+V+ Y ++ ++ + E T R
Sbjct: 1020 STYAKIVEVLFRRGYVYEDKYKRVRPTRFG-VMVYSYLKERYEKYVTEETTR 1070
>pdb|1CY9|A Chain A, Crystal Structure Of The 30 Kda Fragment Of E. Coli Dna
Topoisomerase I. Monoclinic Form
pdb|1CY9|B Chain B, Crystal Structure Of The 30 Kda Fragment Of E. Coli Dna
Topoisomerase I. Monoclinic Form
pdb|1CYY|A Chain A, Crystal Structure Of The 30 Kda Fragment Of E. Coli Dna
Topoisomerase I. Hexagonal Form
pdb|1CYY|B Chain B, Crystal Structure Of The 30 Kda Fragment Of E. Coli Dna
Topoisomerase I. Hexagonal Form
Length = 264
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 66/268 (24%), Positives = 107/268 (39%), Gaps = 20/268 (7%)
Query: 231 FKPEPYWLLDL---TLNLNGVAVSVTWSRGHIF---DKSTCNVFFKAVEKEKHVTVVDVQ 284
F PE +W +D T + +A+ VT F +K +EK ++ +
Sbjct: 1 FVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKARYSVLERED 60
Query: 285 SSTKSKTKPQA-LNTVELMRVASSGLGMGPHHAMQIAERLYTQGYVSYPRTETTQYPENF 343
T SK P A T L + AS+ LG G M +A+RLY GY++Y RT++T +
Sbjct: 61 KPTTSK--PGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRTDSTNLSQ-- 116
Query: 344 DLVAVLRQQESSPDWGDHVREVLSNGISKPRKGKDVGDHPPITPTKLATRTQ----LDGD 399
D V ++R S ++G N + ++ H I P+ + + ++ D
Sbjct: 117 DAVNMVRGYISD-NFGKKYLPESPNQYASKENSQEA--HEAIRPSDVNVMAESLKDMEAD 173
Query: 400 AWRLYDYIVRHFIGTLCGDLVYTQKVAKFSVADEMFTMEAKYLLHPGFTGVMTWSAMKNE 459
A +LY I R F+ Y D + L G+T VM +E
Sbjct: 174 AQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRILRFDGWTKVMPALRKGDE 233
Query: 460 S--IPDFKPGDLIPIQSVKMVERKTTPP 485
+P GD + + + + T PP
Sbjct: 234 DRILPAVNKGDALTLVELTPAQHFTKPP 261
>pdb|2CJQ|A Chain A, Bovine Viral Diarrhea Virus Cp7-R12 Rna-Dependent Rna
Polymerase
Length = 720
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 56/122 (45%), Gaps = 18/122 (14%)
Query: 43 PLFGDLVLF---KMTSVCGHIMGLDFTSKYNNWDKVD-PLELFSCPTEKREATPK---LK 95
PLF +L+L K+ S GH M + NW+ +D + L + P + + P LK
Sbjct: 16 PLFEELLLRCPPKIKSNKGH-MASAYQLAQGNWEPLDCGVHLGTIPARRVKIHPYEAYLK 74
Query: 96 LPAFLANEAKD--CEFLVLWLDCDKEGENICFEVMEAVRHQININSPKTVWRARFSAITD 153
L L E K C V+ +E +++ VRHQ N+N+ KT+ + S D
Sbjct: 75 LKDLLEEEEKKPKCRDTVI-----REHNKW---ILKKVRHQGNLNTKKTLNPGKLSEQLD 126
Query: 154 KD 155
++
Sbjct: 127 RE 128
>pdb|3IL4|A Chain A, Structure Of E. Faecalis Fabh In Complex With Acetyl Coa
pdb|3IL4|B Chain B, Structure Of E. Faecalis Fabh In Complex With Acetyl Coa
pdb|3IL4|C Chain C, Structure Of E. Faecalis Fabh In Complex With Acetyl Coa
pdb|3IL4|D Chain D, Structure Of E. Faecalis Fabh In Complex With Acetyl Coa
Length = 320
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 469 LIPIQSVKMVERKTTPPDYLTESELISLMEKHGIGTDASIPVHINNICQRNYVTVTSGRR 528
L+ SV++++ K ++ + ++ M+K+G + ASIP+ ++ + + + S +R
Sbjct: 243 LLHQASVRIID-KIARKTKISREKFLTNMDKYGNTSAASIPILLDEAVENGTLILGSQQR 301
Query: 529 LVPTSLGIVLVHG 541
+V T G L G
Sbjct: 302 VVLTGFGGGLTWG 314
>pdb|3IL5|A Chain A, Structure Of E. Faecalis Fabh In Complex With
2-({4-Bromo-3-
[(Diethylamino)sulfonyl]benzoyl}amino)benzoic Acid
pdb|3IL5|B Chain B, Structure Of E. Faecalis Fabh In Complex With
2-({4-Bromo-3-
[(Diethylamino)sulfonyl]benzoyl}amino)benzoic Acid
pdb|3IL5|C Chain C, Structure Of E. Faecalis Fabh In Complex With
2-({4-Bromo-3-
[(Diethylamino)sulfonyl]benzoyl}amino)benzoic Acid
pdb|3IL5|D Chain D, Structure Of E. Faecalis Fabh In Complex With
2-({4-Bromo-3-
[(Diethylamino)sulfonyl]benzoyl}amino)benzoic Acid
Length = 343
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 472 IQSVKMVERKTTPPDYLTESELISLMEKHGIGTDASIPVHINNICQRNYVTVTSGRRLVP 531
++ + + RKT ++ + ++ M+K+G + ASIP+ ++ + + + S +R+V
Sbjct: 270 VRIIDKIARKTK----ISREKFLTNMDKYGNTSAASIPILLDEAVENGTLILGSQQRVVL 325
Query: 532 TSLGIVLVHG 541
T G L G
Sbjct: 326 TGFGGGLTWG 335
>pdb|3IL6|A Chain A, Structure Of E. Faecalis Fabh In Complex With 2-({4-[(3r,
5s)-3,5-Dimethylpiperidin-1-Yl]-3-Phenoxybenzoyl}amino)
Benzoic Acid
Length = 321
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 472 IQSVKMVERKTTPPDYLTESELISLMEKHGIGTDASIPVHINNICQRNYVTVTSGRRLVP 531
++ + + RKT ++ + ++ M+K+G + ASIP+ ++ + + + S +R+V
Sbjct: 250 VRIIDKIARKTK----ISREKFLTNMDKYGNTSAASIPILLDEAVENGTLILGSQQRVVL 305
Query: 532 TSLGIVLVHG 541
T G L G
Sbjct: 306 TGFGGGLTWG 315
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
0.320 0.136 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,388,561
Number of Sequences: 62578
Number of extensions: 721952
Number of successful extensions: 1472
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1431
Number of HSP's gapped (non-prelim): 19
length of query: 562
length of database: 14,973,337
effective HSP length: 104
effective length of query: 458
effective length of database: 8,465,225
effective search space: 3877073050
effective search space used: 3877073050
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)