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= 046457
         (59 letters)

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

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



>pdb|4HKX|E Chain E, Influenza Hemagglutinin In Complex With Ch67 Fab
          Length = 220

 Score = 26.9 bits (58), Expect = 2.6,   Method: Composition-based stats.
 Identities = 13/39 (33%), Positives = 17/39 (43%)

Query: 19  FPVSRSIPFIVLHGIGDQCSNQGVKQFTENLSSFSGSKG 57
           FP   S P     G+   CS+ G   F +NL   +G  G
Sbjct: 78  FPKESSWPNHTTTGVSASCSHNGESSFYKNLLWLTGKNG 116


>pdb|3SM5|A Chain A, Influenza Hemagglutinin In Complex With A Neutralizing
           Antibody
 pdb|3SM5|C Chain C, Influenza Hemagglutinin In Complex With A Neutralizing
           Antibody
 pdb|3SM5|E Chain E, Influenza Hemagglutinin In Complex With A Neutralizing
           Antibody
          Length = 327

 Score = 26.9 bits (58), Expect = 2.6,   Method: Composition-based stats.
 Identities = 13/39 (33%), Positives = 17/39 (43%)

Query: 19  FPVSRSIPFIVLHGIGDQCSNQGVKQFTENLSSFSGSKG 57
           FP   S P     G+   CS+ G   F +NL   +G  G
Sbjct: 118 FPKESSWPNHTTTGVSASCSHNGESSFYKNLLWLTGKNG 156


>pdb|1EH5|A Chain A, Crystal Structure Of Palmitoyl Protein Thioesterase 1
          Complexed With Palmitate
 pdb|1EI9|A Chain A, Crystal Structure Of Palmitoyl Protein Thioesterase 1
 pdb|1EXW|A Chain A, Crystal Structure Of Palmitoyl Protein Thioesterase 1
          Complexed With Hexadecylsulfonyl Fluoride
          Length = 279

 Score = 26.2 bits (56), Expect = 5.3,   Method: Composition-based stats.
 Identities = 7/15 (46%), Positives = 11/15 (73%)

Query: 25 IPFIVLHGIGDQCSN 39
          +P ++ HG+GD C N
Sbjct: 6  LPLVIWHGMGDSCCN 20


  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
   0.330    0.143    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,527,902
Number of Sequences: 62578
Number of extensions: 41455
Number of successful extensions: 111
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 108
Number of HSP's gapped (non-prelim): 3
length of query: 59
length of database: 14,973,337
effective HSP length: 30
effective length of query: 29
effective length of database: 13,095,997
effective search space: 379783913
effective search space used: 379783913
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)