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= 043939
(227 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IVN|A Chain A, E.Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIASE L1
pdb|1U8U|A Chain A, E. Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIASE L1 IN
COMPLEXED With Octanoic Acid
Length = 190
Score = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 52/113 (46%), Gaps = 7/113 (6%)
Query: 30 TVLILFAPLRKGTGNKLIISVIWSAYLLADWAANFAVGLIAENAKDTSEK---KHKELLA 86
T+LIL L G ++ S W A L W + +V + A + DTS++ + LL
Sbjct: 3 TLLILGDSL--SAGYRMSASAAWPALLNDKWQSKTSV-VNASISGDTSQQGLARLPALLK 59
Query: 87 FWAP-FLLLHLGGPDTITAFALEDNELWLRHLFGLIFQAVAAGYIFLLSLPGN 138
P ++L+ LGG D + F + E LR + + A A + + LP N
Sbjct: 60 QHQPRWVLVELGGNDGLRGFQPQQTEQTLRQILQDVKAANAEPLLMQIRLPAN 112
>pdb|1J00|A Chain A, E. Coli Thioesterase I/protease I/lysophospholipase L1 In
Complexed With Diethyl Phosphono Moiety
Length = 190
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 52/113 (46%), Gaps = 7/113 (6%)
Query: 30 TVLILFAPLRKGTGNKLIISVIWSAYLLADWAANFAVGLIAENAKDTSEK---KHKELLA 86
T+LIL L G ++ S W A L W + +V + A + DTS++ + LL
Sbjct: 3 TLLILGDXL--SAGYRMSASAAWPALLNDKWQSKTSV-VNASISGDTSQQGLARLPALLK 59
Query: 87 FWAP-FLLLHLGGPDTITAFALEDNELWLRHLFGLIFQAVAAGYIFLLSLPGN 138
P ++L+ LGG D + F + E LR + + A A + + LP N
Sbjct: 60 QHQPRWVLVELGGNDGLRGFQPQQTEQTLRQILQDVKAANAEPLLMQIRLPAN 112
>pdb|1WE4|A Chain A, Crystal Structure Of Class A Beta-Lactamase Toho-1 G238c
Mutant
Length = 262
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 112 LIAHLGGPDKVTAFA 126
>pdb|1IYS|A Chain A, Crystal Structure Of Class A Beta-Lactamase Toho-1
Length = 262
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 112 LIAHLGGPDKVTAFA 126
>pdb|2WYX|A Chain A, Neutron Structure Of A Class A Beta-Lactamase Toho-1
E166a R274n R276n Triple Mutant
Length = 256
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 109 LIAHLGGPDKVTAFA 123
>pdb|1IYO|A Chain A, Toho-1 Beta-Lactamase In Complex With Cefotaxime
pdb|1IYP|A Chain A, Toho-1 Beta-Lactamase In Complex With Cephalothin
pdb|1IYQ|A Chain A, Toho-1 Beta-Lactamase In Complex With Benzylpenicillin
pdb|1BZA|A Chain A, Beta-Lactamase Toho-1 From Escherichia Coli Tuh12191
Length = 262
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 112 LIAHLGGPDKVTAFA 126
>pdb|4BD1|A Chain A, Neutron Structure Of A Perdeuterated Toho-1 R274n R276n
Double Mutant Beta-lactamase In Complex With A Fully
Deuterated Boronic Acid (bzb)
Length = 261
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 111 LIAHLGGPDKVTAFA 125
>pdb|2XQZ|A Chain A, Neutron Structure Of The Perdeuterated Toho-1 R274n R276n
Double Mutant Beta-Lactamase
Length = 260
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 110 LIAHLGGPDKVTAFA 124
>pdb|2ZQ8|A Chain A, Apo Structure Of Class A Beta-Lactamase Toho-1 R274nR276N
Double Mutant
Length = 262
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 112 LIAHLGGPDKVTAFA 126
>pdb|4BD0|A Chain A, X-ray Structure Of A Perdeuterated Toho-1 R274n R276n
Double Mutant Beta-lactamase In Complex With A Fully
Deuterated Boronic Acid (bzb)
Length = 261
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 111 LIAHLGGPDKVTAFA 125
>pdb|2XR0|A Chain A, Room Temperature X-Ray Structure Of The Perdeuterated
Toho-1 R274n R276n Double Mutant Beta-Lactamase
Length = 260
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 110 LIAHLGGPDKVTAFA 124
>pdb|2ZQ7|A Chain A, Apo Structure Of Class A Beta-Lactamase Toho-1
E166aR274NR276N TRIPLE MUTANT
pdb|2ZQ9|A Chain A, Cephalothin Acyl-Intermediate Structure Of Class A Beta-
Lactamase Toho-1 E166aR274NR276N TRIPLE MUTANT
pdb|2ZQA|A Chain A, Cefotaxime Acyl-Intermediate Structure Of Class A
Beta-Lacta Toho-1 E166aR274NR276N TRIPLE MUTANT
pdb|2ZQC|A Chain A, Aztreonam Acyl-Intermediate Structure Of Class A
Beta-Lactam Toho-1 E166aR274NR276N TRIPLE MUTANT
pdb|2ZQD|A Chain A, Ceftazidime Acyl-Intermediate Structure Of Class A
Beta-Lact Toho-1 E166aR274NR276N TRIPLE MUTANT
Length = 262
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 92 LLLHLGGPDTITAFA 106
L+ HLGGPD +TAFA
Sbjct: 112 LIAHLGGPDKVTAFA 126
>pdb|1KFS|A Chain A, Dna Polymerase I Klenow Fragment (e.c.2.7.7.7) Mutant/dna
Complex
pdb|1KRP|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA
Complex
pdb|1KSP|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA
Complex
pdb|2KFN|A Chain A, Klenow Fragment With Bridging-Sulfur Substrate And
Manganese
pdb|2KFZ|A Chain A, Klenow Fragment With Bridging-Sulfur Substrate And Zinc
Only
pdb|2KZM|A Chain A, Klenow Fragment With Normal Substrate And Zinc And
Manganese
pdb|2KZZ|A Chain A, Klenow Fragment With Normal Substrate And Zinc Only
pdb|1QSL|A Chain A, Klenow Fragment Complexed With Single-Stranded Substrate
And Europium (Iii) Ion
pdb|1D9D|A Chain A, Crystall Structure Of The Complex Of Dna Polymerase I
Klenow Fragment With Short Dna Fragment Carrying 2'-0-
Aminopropyl-Rna Modifications 5'-D(Tcg)-Ap(Auc)-3'
pdb|1D9F|A Chain A, Crystal Structure Of The Complex Of Dna Polymerase I
Klenow Fragment With Dna Tetramer Carrying
2'-O-(3-Aminopropyl)- Rna Modification
5'-D(Tt)-Ap(U)-D(T)-3'
Length = 605
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 118 FGLIFQAVAAGYIFLLSLPGNQLLFPTILIF--IAGIIKYVERTRA 161
FGLI+ A G L++P + L F G+++Y+ERTRA
Sbjct: 439 FGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRA 484
>pdb|1DPI|A Chain A, Structure Of Large Fragment Of Escherichia Coli Dna
Polymerase I Complexed With DTMP
pdb|1KFD|A Chain A, Crystal Structures Of The Klenow Fragment Of Dna
Polymerase I Complexed With Deoxynucleoside Triphosphate
And Pyrophosphate
Length = 605
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 118 FGLIFQAVAAGYIFLLSLPGNQLLFPTILIF--IAGIIKYVERTRA 161
FGLI+ A G L++P + L F G+++Y+ERTRA
Sbjct: 439 FGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRA 484
>pdb|3BFC|A Chain A, Class A Beta-Lactamase Sed-G238c Complexed With Imipenem
pdb|3BFC|B Chain B, Class A Beta-Lactamase Sed-G238c Complexed With Imipenem
pdb|3BFC|C Chain C, Class A Beta-Lactamase Sed-G238c Complexed With Imipenem
pdb|3BFC|D Chain D, Class A Beta-Lactamase Sed-G238c Complexed With Imipenem
pdb|3BFF|A Chain A, Class A Beta-Lactamase Sed-G238c Complexed With Faropenem
pdb|3BFF|B Chain B, Class A Beta-Lactamase Sed-G238c Complexed With Faropenem
pdb|3BFF|C Chain C, Class A Beta-Lactamase Sed-G238c Complexed With Faropenem
pdb|3BFF|D Chain D, Class A Beta-Lactamase Sed-G238c Complexed With Faropenem
pdb|3BFG|A Chain A, Class A Beta-Lactamase Sed-G238c Complexed With Meropenem
pdb|3BFG|B Chain B, Class A Beta-Lactamase Sed-G238c Complexed With Meropenem
pdb|3BFG|C Chain C, Class A Beta-Lactamase Sed-G238c Complexed With Meropenem
pdb|3BFG|D Chain D, Class A Beta-Lactamase Sed-G238c Complexed With Meropenem
Length = 262
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 92 LLLHLGGPDTITAFA 106
LL HLGGP +TAFA
Sbjct: 112 LLAHLGGPGNVTAFA 126
>pdb|3BFE|A Chain A, Crystal Structure Of The Class A Beta-Lactamase Sed-1 From
Citrobacter Sedlakii
pdb|3BFE|B Chain B, Crystal Structure Of The Class A Beta-Lactamase Sed-1 From
Citrobacter Sedlakii
pdb|3BFE|C Chain C, Crystal Structure Of The Class A Beta-Lactamase Sed-1 From
Citrobacter Sedlakii
pdb|3BFE|D Chain D, Crystal Structure Of The Class A Beta-Lactamase Sed-1 From
Citrobacter Sedlakii
Length = 262
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 92 LLLHLGGPDTITAFA 106
LL HLGGP +TAFA
Sbjct: 112 LLAHLGGPGNVTAFA 126
>pdb|3BFD|A Chain A, Crystal Structure Of The Class A Beta-lactamase Sed-g238c
Mutant From Citrobacter Sedlakii
pdb|3BFD|B Chain B, Crystal Structure Of The Class A Beta-lactamase Sed-g238c
Mutant From Citrobacter Sedlakii
pdb|3BFD|C Chain C, Crystal Structure Of The Class A Beta-lactamase Sed-g238c
Mutant From Citrobacter Sedlakii
pdb|3BFD|D Chain D, Crystal Structure Of The Class A Beta-lactamase Sed-g238c
Mutant From Citrobacter Sedlakii
Length = 263
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 92 LLLHLGGPDTITAFA 106
LL HLGGP +TAFA
Sbjct: 113 LLAHLGGPGNVTAFA 127
>pdb|1KLN|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA
Complex
Length = 605
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 118 FGLIFQAVAAGYIFLLSLPGNQLLFPTILIF--IAGIIKYVERTRA 161
FGLI+ A G L++P + L F G+++Y+ERTRA
Sbjct: 439 FGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRA 484
>pdb|1D8Y|A Chain A, Crystal Structure Of The Complex Of Dna Polymerase I
Klenow Fragment With Dna
Length = 605
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 118 FGLIFQAVAAGYIFLLSLPGNQLLFPTILIF--IAGIIKYVERTRA 161
FGLI+ A G L++P + L F G+++Y+ERTRA
Sbjct: 439 FGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRA 484
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
0.325 0.142 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,001,263
Number of Sequences: 62578
Number of extensions: 272734
Number of successful extensions: 688
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 675
Number of HSP's gapped (non-prelim): 20
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.9 bits)