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= psy11545
         (337 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 =  118 bits (296), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 75/288 (26%), Positives = 139/288 (48%), Gaps = 28/288 (9%)

Query: 34  MPESPSWLLSQGRKDACRNSLRRLRANNYDVEKEVQGLYEFSKRQETQKSRNFKETLAAI 93
           +PESP WL+S+G+++     LR++  N    +            QE + S +        
Sbjct: 220 VPESPRWLMSRGKQEQAEGILRKIMGNTLATQA----------VQEIKHSLDHGRKTGGR 269

Query: 94  VEPACLKPFVILMLYFLIYQFSGVNPVTFYAVNIFKDAGAHVNNNL-AAVIMGIVRLIFT 152
           +    +   VI ++  +  QF G+N V +YA  +FK  GA  +  L   +I+G++ L FT
Sbjct: 270 LLMFGVGVIVIGVMLSIFQQFVGINVVLYYAPEVFKTLGASTDIALLQTIIVGVINLTFT 329

Query: 153 IASCIMMKKMGRRSLTFISSIGCGVSMTGLGLYIFATKDFWPEYKFPAFVSYLPVLMLMT 212
           + + + + K GR+ L  I ++G  + M  LG   +         + P  V+ L +L    
Sbjct: 330 VLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFYT--------QAPGIVALLSMLF--- 378

Query: 213 FTAASTIGYLVVPWVMIGEVYPTKVRGIVGGLTTCA---CHFFI---FLTVKSYNMFQTH 266
           + AA  + +  V WV++ E++P  +RG    +   A    ++F+   F  +   +    H
Sbjct: 379 YVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAH 438

Query: 267 LTKEGTFLMYGCISLLGTIFFYVYLPETKNKTLQEIEEQFAGKSKKHH 314
                ++ +YGC+ +L  +F + ++PETK KTL+E+E  +  ++KK  
Sbjct: 439 FHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEELEALWEPETKKTQ 486


  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
   0.327    0.140    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,275,057
Number of Sequences: 62578
Number of extensions: 352250
Number of successful extensions: 742
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 737
Number of HSP's gapped (non-prelim): 6
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)