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= 011824
         (476 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 = 31/99 (31%), Positives = 50/99 (50%), Gaps = 3/99 (3%)

Query: 32  LYTVLYITGFGAAGIRPCVSSFGADQFDERSKDYKTHLDRFFNFFYLSVTVGAIVAFTLV 91
            YT L++   G+ GI+P VSSF  DQFD+ +K       + F+ FY ++  G+  A   +
Sbjct: 112 FYTGLFLIALGSGGIKPLVSSFMGDQFDQSNKSLA---QKAFDMFYFTINFGSFFASLSM 168

Query: 92  VYIQMEHGWGSAFGALAIAMGISNMLFFIGTPLYRHRLP 130
             +    G   AFG   + M ++ + F++G   Y H  P
Sbjct: 169 PLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPP 207



 Score = 36.6 bits (83), Expect = 0.031,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 14/83 (16%)

Query: 296 SQLQRVGIGLAVSILSVIWAGIFERYRRNYAISHGYEFSFLTAMPDLSAYWLLIQYCLIG 355
           + L+++G G+A++ LS I  G  +                +     LS +W ++ Y L+ 
Sbjct: 371 TALRKMGAGIAITGLSWIVVGTIQL--------------MMDGGSALSIFWQILPYALLT 416

Query: 356 IAEVFCIVGLLEFLYEEAPDAMK 378
             EV      LEF Y +AP AMK
Sbjct: 417 FGEVLVSATGLEFAYSQAPKAMK 439


>pdb|3PJZ|A Chain A, Crystal Structure Of The Potassium Transporter Trkh From
           Vibrio Parahaemolyticus
 pdb|3PJZ|B Chain B, Crystal Structure Of The Potassium Transporter Trkh From
           Vibrio Parahaemolyticus
          Length = 494

 Score = 28.1 bits (61), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 29/107 (27%), Positives = 42/107 (39%), Gaps = 15/107 (14%)

Query: 31  YLYTVLYITGFGAAGIRPCVSSFGADQFDERSKDYKTHLDRFFNFFYLSVTVGAIVAFTL 90
           +L  VL+ T  G+AG  P         F        +  D FF  F    T GA V   L
Sbjct: 70  FLIVVLFWTVLGSAGSLP---------FLIADNPNISVTDAFFESFSALTTTGATVIVGL 120

Query: 91  ------VVYIQMEHGWGSAFGALAIAMGISNMLFFIGTPLYRHRLPG 131
                 +++ +    W    G + +A+ I  +L   G  LYR  +PG
Sbjct: 121 DELPKAILFYRQFLQWFGGMGIIVLAVAILPVLGIGGMQLYRAEIPG 167


  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    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,170,478
Number of Sequences: 62578
Number of extensions: 503274
Number of successful extensions: 1041
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: 1036
Number of HSP's gapped (non-prelim): 6
length of query: 476
length of database: 14,973,337
effective HSP length: 102
effective length of query: 374
effective length of database: 8,590,381
effective search space: 3212802494
effective search space used: 3212802494
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)