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= 048207
         (466 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 =  131 bits (330), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 102/372 (27%), Positives = 172/372 (46%), Gaps = 43/372 (11%)

Query: 95  RLLLGVGIDFGNQSVPLYLSEMAPPKCRGAFNIGFQVCVATGILSANLLNYGTQKI-KGG 153
           R++ G+G+   +   P+Y++E+AP   RG      Q  +  G L    +NY   +     
Sbjct: 133 RIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDAS 192

Query: 154 W----GWKISLAMAAAPASILTIGSLFLPETPNSIIQRTNDHQKAEKMLQRVHGTADVQA 209
           W    GW+   A    PA +  +    +PE+P  ++ R    Q AE +L+++ G      
Sbjct: 193 WLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQ-AEGILRKIMGNT---- 247

Query: 210 ELEDLIRASSDSKNINHPFKKIIQRKYRPQLVM--------AILIPFFQQVTGVNIISFY 261
                  A+   + I H       RK   +L+M         +++  FQQ  G+N++ +Y
Sbjct: 248 ------LATQAVQEIKHSLDH--GRKTGGRLLMFGVGVIVIGVMLSIFQQFVGINVVLYY 299

Query: 262 APVLFRTIKLSENTSLLMSALVTGGIGTVSAILPMILADKLGRKVLFLLGGIQMLVSQVM 321
           AP +F+T+  S + +LL + ++ G I     +L ++  DK GRK L ++G + M +    
Sbjct: 300 APEVFKTLGASTDIALLQT-IIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFS 358

Query: 322 IGSIMAAQLGDHGGFSIGYAYLILVLICVYKAGFGFSWGPLGWLVPSEIFPLEIRSAGQS 381
           +G+    Q       + G   L+ +L   Y A F  SWGP+ W++ SEIFP  IR    +
Sbjct: 359 LGTAFYTQ-------APGIVALLSMLF--YVAAFAMSWGPVCWVLLSEIFPNAIRGKALA 409

Query: 382 ITVAVGLLFTSLVAQTFLAM------LCHFKAGVFFFFGGWLTVMTT-FVHFFLPETKNV 434
           I VA   L    V+ TF  M      + HF  G  ++  G + V+   F+  F+PETK  
Sbjct: 410 IAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGK 469

Query: 435 PIELMDKVWREH 446
            +E ++ +W   
Sbjct: 470 TLEELEALWEPE 481


  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
   0.326    0.141    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,741,670
Number of Sequences: 62578
Number of extensions: 432732
Number of successful extensions: 1126
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: 1120
Number of HSP's gapped (non-prelim): 2
length of query: 466
length of database: 14,973,337
effective HSP length: 102
effective length of query: 364
effective length of database: 8,590,381
effective search space: 3126898684
effective search space used: 3126898684
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)