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= 020863
         (320 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 = 94.7 bits (234), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 80/301 (26%), Positives = 127/301 (42%), Gaps = 31/301 (10%)

Query: 11  WRWMLGVSAVPAIIQFVLMLFMPESPRWLFMKSDKEKAILVLSKIYDIARLEDEIDHLSA 70
           WR+M     +PA++  +L+  +PESPRWL  +  +E+A  +L KI          + L+ 
Sbjct: 199 WRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMG--------NTLAT 250

Query: 71  AAEEELRK-----KKTVRYLDVFKSKEIRXXXXXXXXXXXXXXXXXINTVMYYSPTIVQM 125
            A +E++      +KT   L +F    I                  IN V+YY+P + + 
Sbjct: 251 QAVQEIKHSLDHGRKTGGRLLMFGVGVI----VIGVMLSIFQQFVGINVVLYYAPEVFKT 306

Query: 126 AGFQSNQXXXXXXXXXXGTNAVGTIVGIYLIDHFGRKKLALSSLAGVIISLVLLSWAFIX 185
            G  S              N   T++ I  +D FGRK L +    G+ I +  L  AF  
Sbjct: 307 LG-ASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFYT 365

Query: 186 XXXXXXXXVYGWIAVIGLALYIAFFAPGMGPVPWTLNSEVYPEQYRGICGGMSATVNWIS 245
                     G +A++ +  Y+A FA   GPV W L SE++P   RG    ++    W++
Sbjct: 366 QAP-------GIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLA 418

Query: 246 NLIVAQTFLTVAE---LVG---TGATXXXXXXXXXXXXXXXXXXXPETQGLTFLEVEQMW 299
           N  V+ TF  + +   LV     G +                   PET+G T  E+E +W
Sbjct: 419 NYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEELEALW 478

Query: 300 K 300
           +
Sbjct: 479 E 479


  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
   0.322    0.136    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,490,087
Number of Sequences: 62578
Number of extensions: 236279
Number of successful extensions: 402
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 396
Number of HSP's gapped (non-prelim): 4
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)