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= 040031
         (94 letters)

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

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



>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Xylose
 pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Glucose
 pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To
           6-Bromo-6-Deoxy-D-Glucose
          Length = 491

 Score = 25.4 bits (54), Expect = 7.3,   Method: Composition-based stats.
 Identities = 9/21 (42%), Positives = 16/21 (76%)

Query: 37  IYFFLPETKGIPIEEMGRVWK 57
           ++ F+PETKG  +EE+  +W+
Sbjct: 459 MWKFVPETKGKTLEELEALWE 479


>pdb|2OVL|A Chain A, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2)
 pdb|2OVL|B Chain B, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2)
 pdb|2OVL|C Chain C, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2)
 pdb|2OVL|D Chain D, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2)
 pdb|3CK5|A Chain A, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2) With Bound Magnesium
 pdb|3CK5|B Chain B, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2) With Bound Magnesium
 pdb|3CK5|C Chain C, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2) With Bound Magnesium
 pdb|3CK5|D Chain D, Crystal Structure Of A Racemase From Streptomyces
          Coelicolor A3(2) With Bound Magnesium
          Length = 371

 Score = 25.4 bits (54), Expect = 8.1,   Method: Composition-based stats.
 Identities = 7/22 (31%), Positives = 14/22 (63%)

Query: 46 GIPIEEMGRVWKTHWFWSHYVG 67
          G   E++ ++W++ W+  HY G
Sbjct: 74 GADAEQIEKIWQSXWWRLHYAG 95


  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
   0.325    0.140    0.479 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,531,559
Number of Sequences: 62578
Number of extensions: 88585
Number of successful extensions: 196
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 193
Number of HSP's gapped (non-prelim): 4
length of query: 94
length of database: 14,973,337
effective HSP length: 61
effective length of query: 33
effective length of database: 11,156,079
effective search space: 368150607
effective search space used: 368150607
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: 45 (21.9 bits)