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= 042276
         (71 letters)

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

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



>pdb|1NF1|A Chain A, The Gap Related Domain Of Neurofibromin
          Length = 333

 Score = 26.9 bits (58), Expect = 2.5,   Method: Composition-based stats.
 Identities = 11/19 (57%), Positives = 14/19 (73%)

Query: 32 LADRFDRARELLVSMGSKG 50
          LADRF+R  EL+  MG +G
Sbjct: 4  LADRFERLVELVTMMGDQG 22


>pdb|2PYG|A Chain A, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
           A-Module
 pdb|2PYG|B Chain B, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
           A-Module
 pdb|2PYH|A Chain A, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
           A-Module Complexed With Mannuronan Trisaccharide
 pdb|2PYH|B Chain B, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
           A-Module Complexed With Mannuronan Trisaccharide
          Length = 377

 Score = 26.6 bits (57), Expect = 3.5,   Method: Composition-based stats.
 Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 7/65 (10%)

Query: 4   ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARE-LLVSMGSKGCKQDAFSHSILI 62
            NG + L++QRG+       N L+DG      +D ARE +L+ M S    Q+A  H    
Sbjct: 216 GNGSSGLVVQRGLEDLALPSNILIDG---GAYYDNAREGVLLKMTSDITLQNADIHG--- 269

Query: 63  NGGSA 67
           NG S 
Sbjct: 270 NGSSG 274


  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
   0.322    0.136    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,942,103
Number of Sequences: 62578
Number of extensions: 56221
Number of successful extensions: 90
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 88
Number of HSP's gapped (non-prelim): 3
length of query: 71
length of database: 14,973,337
effective HSP length: 41
effective length of query: 30
effective length of database: 12,407,639
effective search space: 372229170
effective search space used: 372229170
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)