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= psy5074
         (204 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 = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 55/201 (27%), Positives = 96/201 (47%), Gaps = 16/201 (7%)

Query: 3   LMTFQRFSGVSALIYYTVDIFRNAG--TRIAPSTASIIVGAVQXXXXXXXXXXIDRLGRR 60
           L  FQ+F G++ ++YY  ++F+  G  T IA    +IIVG +           +D+ GR+
Sbjct: 284 LSIFQQFVGINVVLYYAPEVFKTLGASTDIA-LLQTIIVGVINLTFTVLAIMTVDKFGRK 342

Query: 61  FLLLTSEITMAFCQLLLVAYFVFKNQGYDMQDYSWIPIFSVCTIVAIFRIGIGPIPWFMM 120
            L +   + MA     L   F  +  G        + + S+   VA F +  GP+ W ++
Sbjct: 343 PLQIIGALGMAIGMFSLGTAFYTQAPGI-------VALLSMLFYVAAFAMSWGPVCWVLL 395

Query: 121 AEIIPLEAKLWSSSLLMCYSWSCLFLVSKVF--MD----LIDTVGSAATYGLLGLICTLG 174
           +EI P   +  + ++ +   W   + VS  F  MD    L+    +  +Y + G +  L 
Sbjct: 396 SEIFPNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLA 455

Query: 175 AVFVYTRVPETKNKSFEAIQA 195
           A+F++  VPETK K+ E ++A
Sbjct: 456 ALFMWKFVPETKGKTLEELEA 476


  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
   0.331    0.141    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,028,662
Number of Sequences: 62578
Number of extensions: 166867
Number of successful extensions: 220
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: 216
Number of HSP's gapped (non-prelim): 1
length of query: 204
length of database: 14,973,337
effective HSP length: 94
effective length of query: 110
effective length of database: 9,091,005
effective search space: 1000010550
effective search space used: 1000010550
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 49 (23.5 bits)