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= psy1409
         (320 letters)

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

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



>pdb|1SRY|A Chain A, Refined Crystal Structure Of The Seryl-Trna Synthetase
          From Thermus Thermophilus At 2.5 Angstroms Resolution
 pdb|1SRY|B Chain B, Refined Crystal Structure Of The Seryl-Trna Synthetase
          From Thermus Thermophilus At 2.5 Angstroms Resolution
 pdb|1SER|A Chain A, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
          Seryl-Trna Synthetase Complexed With Trna Ser
 pdb|1SER|B Chain B, The 2.9 Angstroms Crystal Structure Of T. Thermophilus
          Seryl-Trna Synthetase Complexed With Trna Ser
 pdb|1SES|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
          Seryl-Trna Synthetase Complexed With Two Different
          Analogues Of Seryl-Adenylate
 pdb|1SES|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
          Seryl-Trna Synthetase Complexed With Two Different
          Analogues Of Seryl-Adenylate
 pdb|1SET|A Chain A, Crystal Structures At 2.5 Angstroms Resolution Of
          Seryl-Trna Synthetase Complexed With Two Different
          Analogues Of Seryl-Adenylate
 pdb|1SET|B Chain B, Crystal Structures At 2.5 Angstroms Resolution Of
          Seryl-Trna Synthetase Complexed With Two Different
          Analogues Of Seryl-Adenylate
          Length = 421

 Score = 30.8 bits (68), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 3/62 (4%)

Query: 12 DISELKELVNDEETFNNFTKEATATLTTESNEQKEMLIASNKSLAEYNLSQEEALLEKKS 71
          ++ ELK+ + + +T  N   +    +     E+KE LIA  K+L E     EEAL EK++
Sbjct: 36 EVQELKKRLQEVQTERN---QVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEA 92

Query: 72 QL 73
          +L
Sbjct: 93 RL 94


  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
   0.308    0.124    0.315 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,939,924
Number of Sequences: 62578
Number of extensions: 155840
Number of successful extensions: 674
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 657
Number of HSP's gapped (non-prelim): 37
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (24.3 bits)