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= 036042
         (121 letters)

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

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



>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 = 25.8 bits (55), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 11/40 (27%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 30  DGKIRVE-QWKELVKKEGYIAMWRKPVNNTCYASHGAGVQ 68
           + K+ VE  W  +  K+G  +++    N + Y+ +GAG++
Sbjct: 244 NAKVYVEGAWNRVTNKKGNTSLYDHNNNTSDYSKNGAGIE 283


>pdb|1B9A|A Chain A, Parvalbumin (Mutation;d51a, F102w)
          Length = 108

 Score = 25.4 bits (54), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 10/15 (66%), Positives = 12/15 (80%)

Query: 29  GDGKIRVEQWKELVK 43
           GDGKI V++W  LVK
Sbjct: 93  GDGKIGVDEWTALVK 107


>pdb|1B8R|A Chain A, Parvalbumin
          Length = 108

 Score = 25.4 bits (54), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 10/15 (66%), Positives = 12/15 (80%)

Query: 29  GDGKIRVEQWKELVK 43
           GDGKI V++W  LVK
Sbjct: 93  GDGKIGVDEWTALVK 107


  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
   0.325    0.141    0.463 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,014,447
Number of Sequences: 62578
Number of extensions: 162184
Number of successful extensions: 478
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 476
Number of HSP's gapped (non-prelim): 3
length of query: 121
length of database: 14,973,337
effective HSP length: 83
effective length of query: 38
effective length of database: 9,779,363
effective search space: 371615794
effective search space used: 371615794
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)