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= 012049
         (472 letters)

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

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



>pdb|1VPD|A Chain A, X-Ray Crystal Structure Of Tartronate Semialdehyde
           Reductase [salmonella Typhimurium Lt2]
          Length = 299

 Score = 29.6 bits (65), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 30/64 (46%), Gaps = 6/64 (9%)

Query: 138 LDIKTKLLSHATLLFGFYMAWNIGANDVANAMGTSVGSGALTLRQAVLTAAVLEFSGALL 197
           LD K   +       GF +  +I   D+ANA+ TS G GA    Q  LTAAV E   AL 
Sbjct: 220 LDAKAPXVXDRNFKPGFRIDLHI--KDLANALDTSHGVGA----QLPLTAAVXEXXQALR 273

Query: 198 MGTH 201
              H
Sbjct: 274 ADGH 277


  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
   0.321    0.136    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,059,352
Number of Sequences: 62578
Number of extensions: 356879
Number of successful extensions: 535
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 535
Number of HSP's gapped (non-prelim): 1
length of query: 472
length of database: 14,973,337
effective HSP length: 102
effective length of query: 370
effective length of database: 8,590,381
effective search space: 3178440970
effective search space used: 3178440970
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)