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= 030688
         (173 letters)

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

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



>pdb|2W3J|A Chain A, Structure Of A Family 35 Carbohydrate Binding Module From
           An Environmental Isolate
          Length = 145

 Score = 28.1 bits (61), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 13/23 (56%), Positives = 14/23 (60%)

Query: 109 NKDHHTTGTGFIKMENANGKSFI 131
           NK    TGTGFI  ENA G S +
Sbjct: 20  NKHAGYTGTGFIDTENAVGASIV 42


>pdb|3LAG|A Chain A, The Crystal Structure Of A Functionally Unknown Protein
           Rpa4178 From Rhodopseudomonas Palustris Cga009
 pdb|3LAG|B Chain B, The Crystal Structure Of A Functionally Unknown Protein
           Rpa4178 From Rhodopseudomonas Palustris Cga009
          Length = 98

 Score = 26.9 bits (58), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 16/25 (64%)

Query: 112 HHTTGTGFIKMENANGKSFILAPDN 136
           HHT G  ++ +  A+G+  I+APD 
Sbjct: 32  HHTHGXDYVVVPXADGEXTIVAPDG 56


  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
   0.310    0.126    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,961,780
Number of Sequences: 62578
Number of extensions: 251732
Number of successful extensions: 402
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 15
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
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: 48 (23.1 bits)