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= 026005
(245 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P1N|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|F Chain F, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
Length = 13
Score = 32.0 bits (71), Expect = 0.31, Method: Composition-based stats.
Identities = 11/13 (84%), Positives = 13/13 (100%)
Query: 91 QVVGWPPVRSFRK 103
QVVGWPPVR++RK
Sbjct: 1 QVVGWPPVRNYRK 13
>pdb|3H97|A Chain A, Structure Of A Mutant Methionyl-trna Synthetase With
Modified Specificity
pdb|3H99|A Chain A, Structure Of A Mutant Methionyl-Trna Synthetase With
Modified Specificity Complexed With Methionine
pdb|3H9B|A Chain A, Structure Of A Mutant Methionyl-Trna Synthetase With
Modified Specificity Complexed With Azidonorleucine
Length = 560
Score = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 13/99 (13%)
Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
VQ+ N + NK N F+ DG D +LYK++ + ++ +G+ + S
Sbjct: 391 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 450
Query: 168 GNCGSQGMKDFMNESKLIDLLNGSDYVPTYEDKDGDWML 206
G + +++ M L DL N Y D+ W++
Sbjct: 451 G----KAVREIM---ALADLAN------RYVDEQAPWVV 476
>pdb|1P7P|A Chain A, Methionyl-trna Synthetase From Escherichia Coli Complexed
With Methionine Phosphonate
pdb|1PFU|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionine Phosphinate
pdb|1PFV|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Difluoromethionine
pdb|1PFW|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Trifluoromethionine
pdb|1PFY|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionyl Sulphamoyl Adenosine
pdb|1PG0|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methioninyl Adenylate
pdb|1PG2|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli Complexed
With Methionine And Adenosine
Length = 551
Score = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 13/99 (13%)
Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
VQ+ N + NK N F+ DG D +LYK++ + ++ +G+ + S
Sbjct: 378 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 437
Query: 168 GNCGSQGMKDFMNESKLIDLLNGSDYVPTYEDKDGDWML 206
G + +++ M L DL N Y D+ W++
Sbjct: 438 G----KAVREIM---ALADLAN------RYVDEQAPWVV 463
>pdb|1F4L|A Chain A, Crystal Structure Of The E.Coli Methionyl-Trna Synthetase
Complexed With Methionine
Length = 551
Score = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 13/99 (13%)
Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
VQ+ N + NK N F+ DG D +LYK++ + ++ +G+ + S
Sbjct: 379 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 438
Query: 168 GNCGSQGMKDFMNESKLIDLLNGSDYVPTYEDKDGDWML 206
G + +++ M L DL N Y D+ W++
Sbjct: 439 G----KAVREIM---ALADLAN------RYVDEQAPWVV 464
>pdb|3H9C|A Chain A, Structure Of Methionyl-Trna Synthetase: Crystal Form 2
Length = 547
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 13/99 (13%)
Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
VQ+ N + NK N F+ DG D +LYK++ + ++ +G+ + S
Sbjct: 378 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 437
Query: 168 GNCGSQGMKDFMNESKLIDLLNGSDYVPTYEDKDGDWML 206
G + +++ M L DL N Y D+ W++
Sbjct: 438 G----KAVREIM---ALADLAN------RYVDEQAPWVV 463
>pdb|1QQT|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli
Length = 551
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 13/99 (13%)
Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
VQ+ N + NK N F+ DG D LYK++ + ++ +G+ + S
Sbjct: 378 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPALYKTFTDAAEVIGEAWESREF 437
Query: 168 GNCGSQGMKDFMNESKLIDLLNGSDYVPTYEDKDGDWML 206
G + +++ M L DL N Y D+ W++
Sbjct: 438 G----KAVREIM---ALADLAN------RYVDEQAPWVV 463
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
0.315 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,040,230
Number of Sequences: 62578
Number of extensions: 222965
Number of successful extensions: 596
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 590
Number of HSP's gapped (non-prelim): 8
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 50 (23.9 bits)