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= 039312
         (579 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 = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 37/160 (23%), Positives = 69/160 (43%), Gaps = 24/160 (15%)

Query: 80  LLGAFVSDAYLGRFRTLLVGSIASXXXXXXXXXXAGIHQLRPSSCGDPPHCPQPQGWQFC 139
           LLG +++D + G++ T+L  S+              I+ +  +      H  Q       
Sbjct: 72  LLGGWIADRFFGKYNTILWLSL--------------IYCVGHAFLAIFEHSVQG------ 111

Query: 140 VLFAALTLLSIGAGGIRPCNIAFGADQFDTTTEKGRAQLESFFNWWYFSFXXXXXXXXXX 199
             +  L L+++G+GGI+P   +F  DQFD   +  ++  +  F+ +YF+           
Sbjct: 112 -FYTGLFLIALGSGGIKPLVSSFMGDQFD---QSNKSLAQKAFDMFYFTINFGSFFASLS 167

Query: 200 XXYIQTNVSWVLGFAIPTACLAFSITLFLLGRRCYIYIKP 239
              +  N    + F IP   +  +   F LGR+ YI++ P
Sbjct: 168 MPLLLKNFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPP 207


  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
   0.324    0.136    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,593,009
Number of Sequences: 62578
Number of extensions: 510331
Number of successful extensions: 900
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 896
Number of HSP's gapped (non-prelim): 3
length of query: 579
length of database: 14,973,337
effective HSP length: 104
effective length of query: 475
effective length of database: 8,465,225
effective search space: 4020981875
effective search space used: 4020981875
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: 54 (25.4 bits)