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= 001390
         (1088 letters)

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

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



>pdb|2CO6|B Chain B, Salmonella Enterica Safa Pilin In Complex With The Safb
           Chaperone (type I)
 pdb|2CO7|B Chain B, Salmonella Enterica Safa Pilin In Complex With The Safb
           Chaperone (Type Ii)
          Length = 221

 Score = 30.0 bits (66), Expect = 7.3,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 10/62 (16%)

Query: 821 KIVSNSQNELDILKKSKEVIEDQVKLQKMI-------NEDLDTQLKVARVDLN---EACQ 870
           ++ +N Q++L I++   ++  D+  LQ +        NE  DTQ K A +DLN    AC 
Sbjct: 67  RLEANQQSQLRIVRTGGDMPTDRETLQWVCIKAVPPENEPSDTQAKGATLDLNLSINACD 126

Query: 871 KL 872
           KL
Sbjct: 127 KL 128


  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
   0.311    0.127    0.346 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,843,330
Number of Sequences: 62578
Number of extensions: 999561
Number of successful extensions: 2506
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2447
Number of HSP's gapped (non-prelim): 68
length of query: 1088
length of database: 14,973,337
effective HSP length: 109
effective length of query: 979
effective length of database: 8,152,335
effective search space: 7981135965
effective search space used: 7981135965
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (26.6 bits)