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= 019269
         (343 letters)

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

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



>pdb|3MTJ|A Chain A, The Crystal Structure Of A Homoserine Dehydrogenase From
           Thiobacillus Denitrificans To 2.15a
          Length = 444

 Score = 29.6 bits (65), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 20/30 (66%)

Query: 41  VFLLKLSCYDRKGLLYDVTAVLCELELTIE 70
            + L+L  +DR G+L D+T +L +  ++I+
Sbjct: 359 AYYLRLRAFDRPGVLADITRILADSSISID 388


>pdb|1I78|A Chain A, Crystal Structure Of Outer Membrane Protease Ompt From
           Escherichia Coli
 pdb|1I78|B Chain B, Crystal Structure Of Outer Membrane Protease Ompt From
           Escherichia Coli
          Length = 297

 Score = 29.3 bits (64), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 19/33 (57%)

Query: 245 WMELLQPLRVTVVSRGPDTELLVANPVELSGKG 277
           WM+   P   T  +R PDT+L  AN  +L+ KG
Sbjct: 86  WMDSSNPGTWTDEARHPDTQLNYANEFDLNIKG 118


  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    0.139    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,949,202
Number of Sequences: 62578
Number of extensions: 387997
Number of successful extensions: 865
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 862
Number of HSP's gapped (non-prelim): 9
length of query: 343
length of database: 14,973,337
effective HSP length: 100
effective length of query: 243
effective length of database: 8,715,537
effective search space: 2117875491
effective search space used: 2117875491
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: 52 (24.6 bits)