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= psy5075
         (91 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 = 30.8 bits (68), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 32/50 (64%), Gaps = 5/50 (10%)

Query: 43  IIMGLM--TFQRFSGVSALIYYTVDIFRNAG--TRIAPSTASIIVGAVQV 88
           I++G+M   FQ+F G++ ++YY  ++F+  G  T IA    +IIVG + +
Sbjct: 278 IVIGVMLSIFQQFVGINVVLYYAPEVFKTLGASTDIA-LLQTIIVGVINL 326


>pdb|3HJG|A Chain A, Crystal Structure Of Putative Alpha-Ribazole-5'-Phosphate
           Phosphatase Cobc From Vibrio Parahaemolyticus
 pdb|3HJG|B Chain B, Crystal Structure Of Putative Alpha-Ribazole-5'-Phosphate
           Phosphatase Cobc From Vibrio Parahaemolyticus
          Length = 213

 Score = 29.3 bits (64), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 3/43 (6%)

Query: 15  DFEGNCFVKLWEHWKKFEL--RSPTGKAIGIIMGLMTF-QRFS 54
           DF+G  F  L EHWKK +   +SP   ++     L TF QR S
Sbjct: 88  DFDGMPFDLLTEHWKKLDAFWQSPAHHSLPNAESLSTFSQRVS 130


>pdb|4APS|A Chain A, Crystal Structure Of A Pot Family Peptide Transporter In
           An Inward Open Conformation.
 pdb|4APS|B Chain B, Crystal Structure Of A Pot Family Peptide Transporter In
           An Inward Open Conformation
          Length = 491

 Score = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 12/30 (40%), Positives = 18/30 (60%)

Query: 21  FVKLWEHWKKFELRSPTGKAIGIIMGLMTF 50
           F  LW  WKK +  SPT  A+G++   ++F
Sbjct: 339 FAWLWTAWKKNQPSSPTKFAVGLMFAGLSF 368


  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
   0.323    0.137    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,614,344
Number of Sequences: 62578
Number of extensions: 90774
Number of successful extensions: 111
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 108
Number of HSP's gapped (non-prelim): 3
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)