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= psy17630
         (372 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 = 95.9 bits (237), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 79/322 (24%), Positives = 141/322 (43%), Gaps = 39/322 (12%)

Query: 29  IPVLNLLVFLIVAPETPVYLLSKKRRKDAEKSLLILRGPNYDIHGELDELQKELDIQAQK 88
           IP L  L+ L   PE+P +L+S+ +++ AE  L  + G N      + E++  LD   +K
Sbjct: 208 IPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMG-NTLATQAVQEIKHSLD-HGRK 265

Query: 89  KKSLVEIYSNKATVKATIVIVGLLCFLSFSGINVVIFYLKRILIATNSKIISPNYGQNIV 148
               + ++     V   ++ V L  F  F GINVV++Y   +     +          IV
Sbjct: 266 TGGRLLMFG----VGVIVIGVMLSIFQQFVGINVVLYYAPEVFKTLGASTDIALLQTIIV 321

Query: 149 GFIQVIMTFFSSLLVDKAGRRPLLLISDICMAICIGALGYYFYLLKLDEKLVDGLGLLPV 208
           G I +  T  + + VDK GR+PL +I  + MAI + +LG  FY            G++ +
Sbjct: 322 GVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFSLGTAFY--------TQAPGIVAL 373

Query: 209 ASLAIYIIVFSVGFGPIPGVMMGELFTPDVKGLALGVICILGSLIEFVVVKTVRHRFTPD 268
            S+  Y+  F++ +GP+  V++ E+F   ++G AL +      L  + V  T        
Sbjct: 374 LSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVAAQWLANYFVSWT-------- 425

Query: 269 VKGLALGVICILGSLIEFVVVKTFDDVERAFGTGVAFGTFAVYCIIGTFFVYFVVPETKN 328
                            F ++     +   F  G ++  +    ++   F++  VPETK 
Sbjct: 426 -----------------FPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKG 468

Query: 329 KSLQQIQDELSGVKKKKKARRT 350
           K+L++++       KK +   T
Sbjct: 469 KTLEELEALWEPETKKTQQTAT 490


  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    0.144    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,243,259
Number of Sequences: 62578
Number of extensions: 413779
Number of successful extensions: 1023
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: 1019
Number of HSP's gapped (non-prelim): 5
length of query: 372
length of database: 14,973,337
effective HSP length: 100
effective length of query: 272
effective length of database: 8,715,537
effective search space: 2370626064
effective search space used: 2370626064
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: 52 (24.6 bits)