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= psy6174
         (174 letters)

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

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



>pdb|3ODM|A Chain A, Archaeal-Type Phosphoenolpyruvate Carboxylase
 pdb|3ODM|B Chain B, Archaeal-Type Phosphoenolpyruvate Carboxylase
 pdb|3ODM|C Chain C, Archaeal-Type Phosphoenolpyruvate Carboxylase
 pdb|3ODM|D Chain D, Archaeal-Type Phosphoenolpyruvate Carboxylase
 pdb|3ODM|E Chain E, Archaeal-Type Phosphoenolpyruvate Carboxylase
 pdb|3ODM|F Chain F, Archaeal-Type Phosphoenolpyruvate Carboxylase
 pdb|3ODM|G Chain G, Archaeal-Type Phosphoenolpyruvate Carboxylase
 pdb|3ODM|H Chain H, Archaeal-Type Phosphoenolpyruvate Carboxylase
          Length = 560

 Score = 30.0 bits (66), Expect = 0.75,   Method: Composition-based stats.
 Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 4/47 (8%)

Query: 88  LRVMHGGQATLHSIRVLQPK----QVRVDSQDDHDSTREFLWKRSSH 130
           LR  HG +AT H++R L+ K    + R  S++D D  +EF+   S H
Sbjct: 296 LRYDHGEEATKHAVRELKEKIAQSKPRNFSEEDKDLMKEFIGICSKH 342


>pdb|3V6F|B Chain B, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
           Fragment (e6), Unbound
 pdb|3V6F|D Chain D, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
           Fragment (e6), Unbound
 pdb|3V6F|F Chain F, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
           Fragment (e6), Unbound
 pdb|3V6F|L Chain L, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
           Fragment (e6), Unbound
 pdb|3V6Z|B Chain B, Crystal Structure Of Hepatitis B Virus E-antigen
 pdb|3V6Z|D Chain D, Crystal Structure Of Hepatitis B Virus E-antigen
          Length = 219

 Score = 28.5 bits (62), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 18/78 (23%), Positives = 33/78 (42%), Gaps = 1/78 (1%)

Query: 35  DVTVNVMSAHTTVKAKFFVGPLMLKVEKEFGRGVKKELRSATAT-TAEMMGKINLRVMHG 93
           D T+ + S  T   A ++    +      FG G K E++ A A  T  +    + ++  G
Sbjct: 76  DFTLTISSVQTEDLAVYYCHQYLSSYMYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 135

Query: 94  GQATLHSIRVLQPKQVRV 111
           G + +  +    PK + V
Sbjct: 136 GASVVCFLNNFYPKDINV 153


  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
   0.317    0.129    0.360 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,965,866
Number of Sequences: 62578
Number of extensions: 124983
Number of successful extensions: 250
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 248
Number of HSP's gapped (non-prelim): 4
length of query: 174
length of database: 14,973,337
effective HSP length: 92
effective length of query: 82
effective length of database: 9,216,161
effective search space: 755725202
effective search space used: 755725202
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)