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= 010840
         (499 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 = 57.4 bits (137), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 50/98 (51%), Gaps = 3/98 (3%)

Query: 56  YTVLYITGFGAAGIRPCVSSFGADQFDERSKDYKTHLDRFFNFFYLSVTVGAIVAFTLVV 115
           YT L++   G+ GI+P VSSF  DQFD+ +K       + F+ FY ++  G+  A   + 
Sbjct: 113 YTGLFLIALGSGGIKPLVSSFMGDQFDQSNKSLA---QKAFDMFYFTINFGSFFASLSMP 169

Query: 116 YIQMEHGWGSAFGALAIAMGISNMLFFIGTPLYRHRLP 153
            +    G   AFG   + M ++ + F++G   Y H  P
Sbjct: 170 LLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPP 207



 Score = 37.0 bits (84), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 14/83 (16%)

Query: 319 SQLQRVGIGLAVSILSVIWAGIFERYRRNYAISHGYEFSFLTAMPDLSAYWLLIQYCLIG 378
           + L+++G G+A++ LS I  G  +                +     LS +W ++ Y L+ 
Sbjct: 371 TALRKMGAGIAITGLSWIVVGTIQL--------------MMDGGSALSIFWQILPYALLT 416

Query: 379 IAEVFCIVGLLEFLYEEAPDAMK 401
             EV      LEF Y +AP AMK
Sbjct: 417 FGEVLVSATGLEFAYSQAPKAMK 439


  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
   0.327    0.141    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,731,675
Number of Sequences: 62578
Number of extensions: 527214
Number of successful extensions: 1075
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1070
Number of HSP's gapped (non-prelim): 6
length of query: 499
length of database: 14,973,337
effective HSP length: 103
effective length of query: 396
effective length of database: 8,527,803
effective search space: 3377009988
effective search space used: 3377009988
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: 53 (25.0 bits)