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= 012472
         (463 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 =  125 bits (315), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 104/393 (26%), Positives = 176/393 (44%), Gaps = 60/393 (15%)

Query: 91  RLLLGVGIGFGNQSVPLYLSEMAPPKYRGTFNIGFQLCGAIGVLSANLLNYGTQKI-KGG 149
           R++ G+G+G  +   P+Y++E+AP   RG      Q     G L    +NY   +     
Sbjct: 133 RIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDAS 192

Query: 150 W----GWRISLAMAAAPASILTIGAIFLPETPNSIIQRSNDHQKAQKMLQRVRGIADVEA 205
           W    GWR   A    PA +  +    +PE+P  ++ R    Q A+ +L+++ G      
Sbjct: 193 WLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQ-AEGILRKIMG------ 245

Query: 206 ELNDLIRASSISKSITHPFKNIAQRKYRPQLVM--------AILIPFFQQVTGINIVGLY 257
             N L  A+   + I H   +   RK   +L+M         +++  FQQ  GIN+V  Y
Sbjct: 246 --NTL--ATQAVQEIKHSLDH--GRKTGGRLLMFGVGVIVIGVMLSIFQQFVGINVVLYY 299

Query: 258 SPVLFRTLKLGESTSL-LLSALVAGGMGTVFAIVSMILADKFGRKVLFLVGGIQMLVSQV 316
           +P +F+TL  G ST + LL  ++ G +   F +++++  DKFGRK L ++G + M +   
Sbjct: 300 APEVFKTL--GASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMF 357

Query: 317 MIGSIMAAQLGDHGGFSEGYAYLILVMVCLYSSGYCYSWGPLAWLVPSEIFPLEIRSAGQ 376
            +G+           +++    + L+ +  Y + +  SWGP+ W++ SEIFP  IR    
Sbjct: 358 SLGTAF---------YTQAPGIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKAL 408

Query: 377 SITVAVNXXXXXXXXXXXXPML-------CHF-KAXXXXXXXXLVLIMTTFMHFFLPETK 428
           +I VA              PM+        HF           + ++   FM  F+PETK
Sbjct: 409 AIAVAAQ-WLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETK 467

Query: 429 NVPIEQMDKVWREHWFWMKIVEDVGEESKKIQQ 461
              +E+++ +W               E+KK QQ
Sbjct: 468 GKTLEELEALWE-------------PETKKTQQ 487


  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
   0.325    0.140    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,322,989
Number of Sequences: 62578
Number of extensions: 398247
Number of successful extensions: 1082
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1076
Number of HSP's gapped (non-prelim): 5
length of query: 463
length of database: 14,973,337
effective HSP length: 102
effective length of query: 361
effective length of database: 8,590,381
effective search space: 3101127541
effective search space used: 3101127541
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)