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= 008651
         (558 letters)

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

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



>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter
          Length = 524

 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 48/188 (25%), Positives = 75/188 (39%), Gaps = 35/188 (18%)

Query: 37  NFTGTAFLLALFGGFISDTYLSRFKTCVLFGCIELLGLAILAIQAHAHQLRPKPCVGVAP 96
           +F    +   L GG+I+D +  ++ T +    I  +G A LAI  H+ Q           
Sbjct: 62  SFVIGVYFFPLLGGWIADRFFGKYNTILWLSLIYCVGHAFLAIFEHSVQ----------- 110

Query: 97  NLVNQCDDADGTQVAILFTGLYLFACGTGGVKAALPSLGADQFDERDPKEAAKXXXXXXX 156
                            +TGL+L A G+GG+K  + S   DQFD+ +   A K       
Sbjct: 111 ---------------GFYTGLFLIALGSGGIKPLVSSFMGDQFDQSNKSLAQK---AFDM 152

Query: 157 XXXXXTVGSIIGVTFIVWISTNQGWDWSFGVCTIAVLFATVFVIMGKSLYRHNVPKGS-- 214
                  GS      +  +  N G   +FG+  + +  ATVF  +G+  Y H  P+    
Sbjct: 153 FYFTINFGSFFASLSMPLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPPEPKDP 212

Query: 215 ----PIIR 218
               P+IR
Sbjct: 213 HGFLPVIR 220


  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
   0.326    0.140    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,823,463
Number of Sequences: 62578
Number of extensions: 565868
Number of successful extensions: 1206
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1200
Number of HSP's gapped (non-prelim): 7
length of query: 558
length of database: 14,973,337
effective HSP length: 104
effective length of query: 454
effective length of database: 8,465,225
effective search space: 3843212150
effective search space used: 3843212150
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.4 bits)