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= 045217
(224 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 62/231 (26%), Positives = 99/231 (42%), Gaps = 30/231 (12%)
Query: 10 LIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQ-NGYELKLEWERQKLFDFDVAT 68
L G Q+ + V+R +I +F PE+FW + +G L L+ Q F
Sbjct: 193 LSAGRVQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVN 252
Query: 69 MFQKL----VMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAER 124
Q +++ V++ +K + T L + AS+ LG+G + M +A+R
Sbjct: 253 KEQTQAAVSLLEKARYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQR 312
Query: 125 LYTQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG----DYVERLLAEG---YAKPRS 177
LY G+I+Y RT+ST LS A N V G ++ ++ L E YA +
Sbjct: 313 LYEAGYITYMRTDST----------NLSQDAVNMVRGYISDNFGKKYLPESPNQYASKEN 362
Query: 178 GTDAGDHPPITP-----MRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+A H I P M + +DM DA +LY + + F+ KY
Sbjct: 363 SQEA--HEAIRPSDVNVMAESLKDMEA-DAQKLYQLIWRQFVACQMTPAKY 410
>pdb|3PWT|A Chain A, Crystal Structure Of Mutant E.Coli Topoisomerase Ia
Length = 596
Score = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 62/231 (26%), Positives = 99/231 (42%), Gaps = 30/231 (12%)
Query: 10 LIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQ-NGYELKLEWERQKLFDFDVAT 68
L G Q+ + V+R +I +F PE+FW + +G L L+ Q F
Sbjct: 191 LSAGRVQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVN 250
Query: 69 MFQKL----VMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAER 124
Q +++ V++ +K + T L + AS+ LG+G + M +A+R
Sbjct: 251 KEQTQAAVSLLEKARYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQR 310
Query: 125 LYTQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG----DYVERLLAEG---YAKPRS 177
LY G+I+Y RT+ST LS A N V G ++ ++ L E YA +
Sbjct: 311 LYEAGYITYMRTDST----------NLSQDAVNMVRGYISDNFGKKYLPESPNQYASKEN 360
Query: 178 GTDAGDHPPITP-----MRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+A H I P M + +DM DA +LY + + F+ KY
Sbjct: 361 SQEA--HEAIRPSDVNVMAESLKDMEA-DAQKLYQLIWRQFVACQMTPAKY 408
>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 = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 62/231 (26%), Positives = 99/231 (42%), Gaps = 30/231 (12%)
Query: 10 LIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQ-NGYELKLEWERQKLFDFDVAT 68
L G Q+ + V+R +I +F PE+FW + +G L L+ Q F
Sbjct: 191 LSAGRVQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVN 250
Query: 69 MFQKL----VMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAER 124
Q +++ V++ +K + T L + AS+ LG+G + M +A+R
Sbjct: 251 KEQTQAAVSLLEKARYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQR 310
Query: 125 LYTQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG----DYVERLLAEG---YAKPRS 177
LY G+I+Y RT+ST LS A N V G ++ ++ L E YA +
Sbjct: 311 LYEAGYITYMRTDST----------NLSQDAVNMVRGYISDNFGKKYLPESPNQYASKGN 360
Query: 178 GTDAGDHPPITP-----MRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+A H I P M + +DM DA +LY + + F+ KY
Sbjct: 361 SQEA--HEAIRPSDVNVMAESLKDMEA-DAQKLYQLIWRQFVACQMTPAKY 408
>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 = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 59/229 (25%), Positives = 98/229 (42%), Gaps = 26/229 (11%)
Query: 10 LIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQ-NGYELKLEWERQKLFDFDVAT 68
L G Q+ + V+R +I +F PE+FW + +G L L+ Q F
Sbjct: 191 LSAGRVQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVN 250
Query: 69 MFQKL----VMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAER 124
Q +++ V++ +K + T L + AS+ LG+G + M +A+R
Sbjct: 251 KEQTQAAVSLLEKARYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQR 310
Query: 125 LYTQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG----DYVERLLAEG---YAKPRS 177
LY G+I+Y RT+ST LS A N V G ++ ++ L E YA +
Sbjct: 311 LYEAGYITYMRTDST----------NLSQDAVNMVRGYISDNFGKKYLPESPNQYASKEN 360
Query: 178 GTDAGDH---PPITPMRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+A + + M + +DM DA +LY + + F+ KY
Sbjct: 361 SQEAREAIRPSDVNVMAESLKDMEA-DAQKLYQLIWRQFVACQMTPAKY 408
>pdb|3PX7|A Chain A, Crystal Structure Of Covalent Complex Of Topoisomerase 1a
With Substrate
Length = 595
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 61/231 (26%), Positives = 98/231 (42%), Gaps = 30/231 (12%)
Query: 10 LIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQ-NGYELKLEWERQKLFDFDVAT 68
L G Q+ + V+R +I +F PE+FW + +G L L+ Q F
Sbjct: 191 LSAGRVQSVAVRLVVEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVN 250
Query: 69 MFQKL----VMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAER 124
Q +++ V++ +K + T L + AS+ LG+G + M +A+R
Sbjct: 251 KEQTQAAVSLLEKARYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQR 310
Query: 125 LYTQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG----DYVERLLAEG---YAKPRS 177
LY G+I+ RT+ST LS A N V G ++ ++ L E YA +
Sbjct: 311 LYEAGYITXMRTDST----------NLSQDAVNMVRGYISDNFGKKYLPESPNQYASKEN 360
Query: 178 GTDAGDHPPITP-----MRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+A H I P M + +DM DA +LY + + F+ KY
Sbjct: 361 SQEA--HEAIRPSDVNVMAESLKDMEA-DAQKLYQLIWRQFVACQMTPAKY 408
>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 = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 56/222 (25%), Positives = 92/222 (41%), Gaps = 44/222 (19%)
Query: 13 GPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQNGYELKLEWERQKLFDFDVATMFQK 72
G Q+ LG+ V+R + K EK +TL +++NG L++E +
Sbjct: 752 GRVQSTVLGWIVEREEEYK--KSEKDFTL--LVLENGVNLEVEGK--------------- 792
Query: 73 LVMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAERLYTQGFIS 132
+ D ++ V+++ E +E K T + L S L G Q M + + L+ +GFI+
Sbjct: 793 --IADDVVTVVELQEAEEEKNPLPPYTTSSALSEISQKLRLGVQEVMDILQDLFEKGFIT 850
Query: 133 YPRTESTAYPSSFDFRGTLSALANNPVWGDYVERLLAEGYAKPRSGTDAGDHPPITPMR- 191
Y RT+ST +L V Y+ ++ E RS + G H I P++
Sbjct: 851 YHRTDSTRI-----------SLEGQNVARTYLRKIGKEDIFMGRSWSTEGAHEAIRPVKP 899
Query: 192 ---SATEDM--------LGKDAWRLYSYVCQHFLGTVSPDCK 222
E+M L K R+Y + FL + S K
Sbjct: 900 IDARELEEMIEEGLIADLTKKHLRVYELIFNRFLASQSAAVK 941
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 56/208 (26%), Positives = 88/208 (42%), Gaps = 30/208 (14%)
Query: 33 FKPEKFWTLHPYLVQ-NGYELKLEWERQKLFDFDVATMFQKL----VMQDRILEVIDISE 87
F PE+FW + +G L L+ Q F Q +++ V++ +
Sbjct: 1 FVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKARYSVLERED 60
Query: 88 KQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAERLYTQGFISYPRTESTAYPSSFDF 147
K + T L + AS+ LG+G + M +A+RLY G+I+Y RT+ST
Sbjct: 61 KPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRTDST-------- 112
Query: 148 RGTLSALANNPVWG----DYVERLLAEG---YAKPRSGTDAGDHPPITP-----MRSATE 195
LS A N V G ++ ++ L E YA + +A H I P M + +
Sbjct: 113 --NLSQDAVNMVRGYISDNFGKKYLPESPNQYASKENSQEA--HEAIRPSDVNVMAESLK 168
Query: 196 DMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
DM DA +LY + + F+ KY
Sbjct: 169 DMEA-DAQKLYQLIWRQFVACQMTPAKY 195
>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 = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 96/232 (41%), Gaps = 20/232 (8%)
Query: 9 ILIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQNGYE-LKLEW----------- 56
+L G QTP LG V+R +I +F + F+ + ++V E W
Sbjct: 192 VLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIWQPSEACEPYQD 251
Query: 57 ERQKLFDFDVAT-MFQKLVMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGP 115
E +L +A + ++ Q I V ++K+ES+ P + L A+ G
Sbjct: 252 EEGRLLHRPLAEHVVNRISGQPAI--VTSYNDKRESESAPLPFSLSALQIEAAKRFGLSA 309
Query: 116 QMAMQLAERLY-TQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG-DYVERLLAEGYA 173
Q + + ++LY T I+YPR++ P F G + + V D + + + +
Sbjct: 310 QNVLDICQKLYETHKLITYPRSDCRYLPEEH-FAGRHAVMNAISVHAPDLLPQPVVDPDI 368
Query: 174 KPRSGTD--AGDHPPITPMRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+ R D H I P ++ L ++ ++Y+ + + +L PD +
Sbjct: 369 RNRCWDDKKVDAHHAIIPTARSSAINLTENEAKVYNLIARQYLMQFCPDAVF 420
>pdb|1D6M|A Chain A, Crystal Structure Of E. Coli Dna Topoisomerase Iii
Length = 653
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 51/232 (21%), Positives = 96/232 (41%), Gaps = 20/232 (8%)
Query: 9 ILIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQNGYE-LKLEW----------- 56
+L G QTP LG V+R +I +F + F+ + ++V E W
Sbjct: 192 VLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIWQPSEACEPYQD 251
Query: 57 ERQKLFDFDVAT-MFQKLVMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGP 115
E +L +A + ++ Q I V ++K+ES+ P + L A+ G
Sbjct: 252 EEGRLLHRPLAEHVVNRISGQPAI--VTSYNDKRESESAPLPFSLSALQIEAAKRFGLSA 309
Query: 116 QMAMQLAERLY-TQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG-DYVERLLAEGYA 173
Q + + ++LY T I+YPR++ P F G + + V D + + + +
Sbjct: 310 QNVLDICQKLYETHKLITYPRSDCRYLPEEH-FAGRHAVMNAISVHAPDLLPQPVVDPDI 368
Query: 174 KPRSGTD--AGDHPPITPMRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+ R D H I P ++ L ++ ++Y+ + + +L PD +
Sbjct: 369 RNRCWDDKKVDAHHAIIPTARSSAINLTENEAKVYNLIARQYLMQFCPDAVF 420
>pdb|1I7D|A Chain A, Noncovalent Complex Of E.Coli Dna Topoisomerase Iii With
An 8-Base Single-Stranded Dna Oligonucleotide
Length = 659
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 50/232 (21%), Positives = 96/232 (41%), Gaps = 20/232 (8%)
Query: 9 ILIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQNGYE-LKLEW----------- 56
+L G QTP LG V+R +I +F + F+ + ++V E W
Sbjct: 192 VLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIWQPSEACEPYQD 251
Query: 57 ERQKLFDFDVAT-MFQKLVMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGP 115
E +L +A + ++ Q I V ++K+ES+ P + L A+ G
Sbjct: 252 EEGRLLHRPLAEHVVNRISGQPAI--VTSYNDKRESESAPLPFSLSALQIEAAKRFGLSA 309
Query: 116 QMAMQLAERLY-TQGFISYPRTESTAYPSSFDFRGTLSALANNPVWG-DYVERLLAEGYA 173
Q + + ++LY T I++PR++ P F G + + V D + + + +
Sbjct: 310 QNVLDICQKLYETHKLITFPRSDCRYLPEEH-FAGRHAVMNAISVHAPDLLPQPVVDPDI 368
Query: 174 KPRSGTD--AGDHPPITPMRSATEDMLGKDAWRLYSYVCQHFLGTVSPDCKY 223
+ R D H I P ++ L ++ ++Y+ + + +L PD +
Sbjct: 369 RNRCWDDKKVDAHHAIIPTARSSAINLTENEAKVYNLIARQYLMQFCPDAVF 420
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 53/222 (23%), Positives = 88/222 (39%), Gaps = 28/222 (12%)
Query: 10 LIYGPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQ-NGYELKLEWERQKLFDFDVAT 68
L G Q+ TL R +I F P+K+ H V +G +++ + +K FD +
Sbjct: 163 LSAGRVQSATLKLVCDREREILRFVPKKY---HRITVNFDGLTAEIDVKEKKFFDAETLK 219
Query: 69 MFQKLVMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAERLYTQ 128
Q + + ++E +S K+ + P T L + A S LG+ M +A++LY
Sbjct: 220 EIQSI--DELVVEEKKVSVKKFAPPEP--FKTSTLQQEAYSKLGFSVSKTMMIAQQLYEG 275
Query: 129 --------GFISYPRTESTAYPSSFDFRGTLSALANNPVWGDYVERLLAEGYAKPRSGTD 180
FI+Y RT+ST D+ A N + + E + + +S
Sbjct: 276 VETKDGHIAFITYMRTDSTRVS---DY---AKEEARNLITEVFGEEYVGSKRERRKSNAK 329
Query: 181 AGD-HPPITPMR-----SATEDMLGKDAWRLYSYVCQHFLGT 216
D H I P L D +LY + + FL +
Sbjct: 330 IQDAHEAIRPTNVFMTPEEAGKYLNSDQKKLYELIWKRFLAS 371
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 43/184 (23%), Positives = 71/184 (38%), Gaps = 41/184 (22%)
Query: 13 GPCQTPTLGFCVQRYLQITSFKPEKFWTLHPYLVQNGYELKLEWERQKLFDFDVATMFQK 72
G QT LG+ + R+ + + + ++L LE + ++ FD + K
Sbjct: 714 GRAQTLVLGWIIDRFQESRERRK--------IAIVRDFDLVLEHDEEE-FDLTI-----K 759
Query: 73 LVMQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAERLYTQGFIS 132
LV E++E + T +L A+ L + + MQ+A+ L+ G I+
Sbjct: 760 LV-----------EEREELRTPLPPYTTETMLSDANRILKFSVKQTMQIAQELFENGLIT 808
Query: 133 YPRTESTAYPSSFDFRGTLSALANNPVWGDYVERLLAEGYAKPRSGTDAGDHPPITPMRS 192
Y RT+ST +A + D+V R E +G H I P R
Sbjct: 809 YHRTDSTRVSD------VGQRIAKEYLGDDFVGREWGE----------SGAHECIRPTRP 852
Query: 193 ATED 196
T D
Sbjct: 853 LTRD 856
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 46/112 (41%), Gaps = 16/112 (14%)
Query: 85 ISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAERLYTQGFISYPRTESTAYPSS 144
+ E++E + T +L A+ L + + MQ+A+ L+ G I+Y RT+ST
Sbjct: 761 VEEREELRTPLPPYTTETMLSDANRILKFSVKQTMQIAQELFENGLITYHRTDSTRVSD- 819
Query: 145 FDFRGTLSALANNPVWGDYVERLLAEGYAKPRSGTDAGDHPPITPMRSATED 196
+A + D+V R E +G H I P R T D
Sbjct: 820 -----VGQRIAKEYLGDDFVGREWGE----------SGAHECIRPTRPLTRD 856
>pdb|1U8X|X Chain X, Crystal Structure Of Glva From Bacillus Subtilis, A
Metal-requiring, Nad-dependent
6-phospho-alpha-glucosidase
Length = 472
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 4/72 (5%)
Query: 75 MQDRILEVIDISEKQESKVRPCGLNTVNLLKVASSALGYGPQMAMQLAERLYTQGFISYP 134
++DR +++ +S ++E KVR GLN S G + +L E + G+I P
Sbjct: 200 IEDRXAQILGLSSRKEXKVRYYGLNHFGWW--TSIQDQEGNDLXPKLKEHVSQYGYI--P 255
Query: 135 RTESTAYPSSFD 146
+TE+ A +S++
Sbjct: 256 KTEAEAVEASWN 267
>pdb|2C21|A Chain A, Specificity Of The Trypanothione-Dependednt Leishmania
Major Glyoxalase I: Structure And Biochemical Comparison
With The Human Enzyme
pdb|2C21|B Chain B, Specificity Of The Trypanothione-Dependednt Leishmania
Major Glyoxalase I: Structure And Biochemical Comparison
With The Human Enzyme
pdb|2C21|C Chain C, Specificity Of The Trypanothione-Dependednt Leishmania
Major Glyoxalase I: Structure And Biochemical Comparison
With The Human Enzyme
pdb|2C21|D Chain D, Specificity Of The Trypanothione-Dependednt Leishmania
Major Glyoxalase I: Structure And Biochemical Comparison
With The Human Enzyme
pdb|2C21|E Chain E, Specificity Of The Trypanothione-Dependednt Leishmania
Major Glyoxalase I: Structure And Biochemical Comparison
With The Human Enzyme
pdb|2C21|F Chain F, Specificity Of The Trypanothione-Dependednt Leishmania
Major Glyoxalase I: Structure And Biochemical Comparison
With The Human Enzyme
Length = 144
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 111 LGYGPQMAMQLAERLYTQGFISYPRTESTAY 141
LGYGP+M+ + E Y G SY E+ +
Sbjct: 50 LGYGPEMSSTVLELTYNYGVTSYKHDEAYGH 80
>pdb|1E5E|A Chain A, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis In
Complex With Propargylglycine
pdb|1E5E|B Chain B, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis In
Complex With Propargylglycine
pdb|1E5F|A Chain A, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis
pdb|1E5F|B Chain B, Methionine Gamma-Lyase (Mgl) From Trichomonas Vaginalis
Length = 404
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 11/76 (14%)
Query: 97 GLNTVNLLKVASSALGYGPQMAMQLAERLYTQGFISYPRTESTAYPSSFDFRGTLSALAN 156
GL+T+N+ A S + AM++AE L S+P E YP D G A
Sbjct: 256 GLSTLNIRMKAES------ENAMKVAEYLK-----SHPAVEKVYYPGFEDHEGHDIAKKQ 304
Query: 157 NPVWGDYVERLLAEGY 172
++G + +L G+
Sbjct: 305 MRMYGSMITFILKSGF 320
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
0.322 0.137 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,845,149
Number of Sequences: 62578
Number of extensions: 273788
Number of successful extensions: 508
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 493
Number of HSP's gapped (non-prelim): 18
length of query: 224
length of database: 14,973,337
effective HSP length: 95
effective length of query: 129
effective length of database: 9,028,427
effective search space: 1164667083
effective search space used: 1164667083
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)