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= 030803
         (171 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 = 32.3 bits (72), Expect = 0.13,   Method: Composition-based stats.
 Identities = 11/13 (84%), Positives = 13/13 (100%)

Query: 91  QVVGWPPVRSFRK 103
           QVVGWPPVR++RK
Sbjct: 1   QVVGWPPVRNYRK 13


>pdb|1F4L|A Chain A, Crystal Structure Of The E.Coli Methionyl-Trna Synthetase
           Complexed With Methionine
          Length = 551

 Score = 31.2 bits (69), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
           VQ+ N +  NK       N  F+    DG       D +LYK++ + ++ +G+ + S   
Sbjct: 379 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 438

Query: 168 GTYI 171
           G  +
Sbjct: 439 GKAV 442


>pdb|3H9C|A Chain A, Structure Of Methionyl-Trna Synthetase: Crystal Form 2
          Length = 547

 Score = 31.2 bits (69), Expect = 0.32,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
           VQ+ N +  NK       N  F+    DG       D +LYK++ + ++ +G+ + S   
Sbjct: 378 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 437

Query: 168 GTYI 171
           G  +
Sbjct: 438 GKAV 441


>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 = 0.32,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
           VQ+ N +  NK       N  F+    DG       D +LYK++ + ++ +G+ + S   
Sbjct: 378 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 437

Query: 168 GTYI 171
           G  +
Sbjct: 438 GKAV 441


>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 = 30.8 bits (68), Expect = 0.36,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 29/64 (45%)

Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
           VQ+ N +  NK       N  F+    DG       D +LYK++ + ++ +G+ + S   
Sbjct: 391 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPQLYKTFTDAAEVIGEAWESREF 450

Query: 168 GTYI 171
           G  +
Sbjct: 451 GKAV 454


>pdb|1QQT|A Chain A, Methionyl-Trna Synthetase From Escherichia Coli
          Length = 551

 Score = 30.4 bits (67), Expect = 0.58,   Method: Composition-based stats.
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 108 VQKDNEEGDNKAXXXXXXNVAFVKVSMDGAPYLRKVDLKLYKSYQELSDALGKMFSSFTI 167
           VQ+ N +  NK       N  F+    DG       D  LYK++ + ++ +G+ + S   
Sbjct: 378 VQRVNADIVNKVVNLASRNAGFINKRFDGVLASELADPALYKTFTDAAEVIGEAWESREF 437

Query: 168 GTYI 171
           G  +
Sbjct: 438 GKAV 441


  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
   0.314    0.131    0.364 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,601,672
Number of Sequences: 62578
Number of extensions: 109539
Number of successful extensions: 185
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 177
Number of HSP's gapped (non-prelim): 8
length of query: 171
length of database: 14,973,337
effective HSP length: 92
effective length of query: 79
effective length of database: 9,216,161
effective search space: 728076719
effective search space used: 728076719
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 48 (23.1 bits)