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= 002541
         (910 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1GAX|A Chain A, Crystal Structure Of Thermus Thermophilus Valyl-Trna
           Synthetase Complexed With Trna(Val) And Valyl-Adenylate
           Analogue
 pdb|1GAX|B Chain B, Crystal Structure Of Thermus Thermophilus Valyl-Trna
           Synthetase Complexed With Trna(Val) And Valyl-Adenylate
           Analogue
 pdb|1IVS|A Chain A, Crystal Structure Of Thermus Thermophilus Valyl-Trna
           Synthetase Complexed With Trna(Val) And Valyl-Adenylate
           Analogue
 pdb|1IVS|B Chain B, Crystal Structure Of Thermus Thermophilus Valyl-Trna
           Synthetase Complexed With Trna(Val) And Valyl-Adenylate
           Analogue
 pdb|1IYW|A Chain A, Preliminary Structure Of Thermus Thermophilus Ligand-Free
           Valyl-Trna Synthetase
 pdb|1IYW|B Chain B, Preliminary Structure Of Thermus Thermophilus Ligand-Free
           Valyl-Trna Synthetase
          Length = 862

 Score = 32.0 bits (71), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 32/61 (52%)

Query: 597 IRQREGMASVAVASLEAELDRTRSEIALVQMKEKEAREKTVELPKQLQVAAQEADQAKSL 656
           I +R G+  V+V +LE  ++  R   AL  +   EAR K VEL ++     +E D   +L
Sbjct: 282 IGERHGLKPVSVINLEGRMEGERVPEALRGLDRFEARRKAVELFREAGHLVKEEDYTIAL 341

Query: 657 A 657
           A
Sbjct: 342 A 342


>pdb|1WKA|A Chain A, Structural Basis For Non-Cognate Amino Acid Discrimination
           By The Valyl-Trna Synthetase Editing Domain
          Length = 147

 Score = 30.4 bits (67), Expect = 4.7,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%)

Query: 597 IRQREGMASVAVASLEAELDRTRSEIALVQMKEKEAREKTVELPKQLQVAAQEAD 651
           I +R G+  V+V +LE  ++  R   AL  +   EAR K VEL ++     +E D
Sbjct: 91  IGERHGLKPVSVINLEGRMEGERVPEALRGLDRFEARRKAVELFREAGHLVKEED 145


>pdb|1WK9|A Chain A, Structural Basis For Non-Cognate Amino Acid Discrimination
           By The Valyl-Trna Synthetase Editing Domain
          Length = 146

 Score = 30.4 bits (67), Expect = 4.8,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 29/55 (52%)

Query: 597 IRQREGMASVAVASLEAELDRTRSEIALVQMKEKEAREKTVELPKQLQVAAQEAD 651
           I +R G+  V+V +LE  ++  R   AL  +   EAR K VEL ++     +E D
Sbjct: 91  IGERHGLKPVSVINLEGRMEGERVPEALRGLDRFEARRKAVELFREAGHLVKEED 145


  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
   0.305    0.121    0.314 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,042,954
Number of Sequences: 62578
Number of extensions: 745797
Number of successful extensions: 1494
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 1409
Number of HSP's gapped (non-prelim): 114
length of query: 910
length of database: 14,973,337
effective HSP length: 108
effective length of query: 802
effective length of database: 8,214,913
effective search space: 6588360226
effective search space used: 6588360226
T: 11
A: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 56 (26.2 bits)