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= 042030
         (322 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 = 89.7 bits (221), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 72/292 (24%), Positives = 132/292 (45%), Gaps = 49/292 (16%)

Query: 3   PIYIAEITPKNIRGAFTATSQFLIVSGMSVMYLVGTIVS------------WRALALIAA 50
           P+YIAE+ P +IRG   + +QF I+ G  ++Y V   ++            WR +     
Sbjct: 148 PMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSGDASWLNTDGWRYMFASEC 207

Query: 51  VPCLLQVVGLFFIPESPRWLAKIGKEKELETTLQCLRGKTADISMESADIRDCTQTFEKD 110
           +P LL ++ L+ +PESPRWL   GK+++ E  L+ + G T    + +  +++   + +  
Sbjct: 208 IPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMGNT----LATQAVQEIKHSLDHG 263

Query: 111 SKAGIFDLFQRRYAYSLSV---GVGLMVMQPFVGXXXXXXXXXXXXXXXDLSTDIGSISM 167
            K G      R   + + V   GV L + Q FVG                 STDI  +  
Sbjct: 264 RKTG-----GRLLMFGVGVIVIGVMLSIFQQFVGINVVLYYAPEVFKTLGASTDIALLQT 318

Query: 168 AIIQASTIWMGLSLTIIAL---------------AFGLQ------DTHLWNEATPVLVYV 206
            I+      + L+ T++A+               A G+        T  + +A  ++  +
Sbjct: 319 IIVGV----INLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFYTQAPGIVALL 374

Query: 207 GIMGFSIAFALGMAGLPSVIMAEIFPINIKGSAGSLVILLHNCSNWIVTYTF 258
            ++ +  AFA+    +  V+++EIFP  I+G A ++ +     +N+ V++TF
Sbjct: 375 SMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVSWTF 426


  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    0.138    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,977,136
Number of Sequences: 62578
Number of extensions: 270231
Number of successful extensions: 576
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 573
Number of HSP's gapped (non-prelim): 1
length of query: 322
length of database: 14,973,337
effective HSP length: 99
effective length of query: 223
effective length of database: 8,778,115
effective search space: 1957519645
effective search space used: 1957519645
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: 51 (24.3 bits)