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= 018767
         (350 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 =  150 bits (379), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 111/353 (31%), Positives = 169/353 (47%), Gaps = 34/353 (9%)

Query: 14  GYGIGVFSYVVPIFIAEIAPXXXXXXXXXXXXXXIVTGSSVAYIIGSIIP---------- 63
           G G+G+ S + P++IAE+AP              I+ G  + Y +   I           
Sbjct: 137 GIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDASWLNT 196

Query: 64  --WRIXXXXXXXXXXXXXXXXXXXXESPRWLAKVGLDKEFQVALRKLRGKDADITREAAE 121
             WR                     ESPRWL   G  ++ +  LRK+ G     T     
Sbjct: 197 DGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMGN----TLATQA 252

Query: 122 IQVYILTLRSLPKASIRDLFKSKYIRSVIIGVSLMVLQQFVGINGIGFYTSETFVQAGLS 181
           +Q    +L    K   R L     +  ++IGV L + QQFVGIN + +Y  E F   G S
Sbjct: 253 VQEIKHSLDHGRKTGGRLLMFG--VGVIVIGVMLSIFQQFVGINVVLYYAPEVFKTLGAS 310

Query: 182 S--GKLGTILYACVQVPITVVGAFLMDKSGRRPLIMISAAGTFLGCFLAGTSFFLKGQNM 239
           +    L TI+   + +  TV+    +DK GR+PL +I A G  +G F  GT+F+ +    
Sbjct: 311 TDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFYTQAPG- 369

Query: 240 FLDWVPVLAVGGILIYIAFFSIGFGAVPWVIMSEIFPINIKGVAGSLVVLVNWSGAWAVS 299
                 ++A+  +L Y+A F++ +G V WV++SEIFP  I+G A ++ V   W   + VS
Sbjct: 370 ------IVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVS 423

Query: 300 YTFNFL--MSW-----SSSGTFFIYSAFSVITVLFVAKFVPETKGKTLEQIQA 345
           +TF  +   SW      +  +++IY    V+  LF+ KFVPETKGKTLE+++A
Sbjct: 424 WTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEELEA 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
   0.327    0.142    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,619,478
Number of Sequences: 62578
Number of extensions: 313392
Number of successful extensions: 803
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 797
Number of HSP's gapped (non-prelim): 2
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
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)