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= 020792
         (321 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 = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 78/298 (26%), Positives = 122/298 (40%), Gaps = 66/298 (22%)

Query: 41  TFVAVCGSYVFGSAIGYSSPAQSGITNDLGL---------SVAEYSLFGSILT---IGAM 88
           T VA  G  +FG    Y +   SG    L             A  SL G  +    IG +
Sbjct: 14  TLVATLGGLLFG----YDTAVISGTVESLNTVFVAPQNLSESAANSLLGFCVASALIGCI 69

Query: 89  IGAIMSGKIADYIGRRGTMGFSDIVCIIGWVIIVFSKAAWWLDLG--------------- 133
           IG  + G  ++  GRR ++  + ++  I  V       + W +LG               
Sbjct: 70  IGGALGGYCSNRFGRRDSLKIAAVLFFISGV------GSAWPELGFTSINPDNTVPVYLA 123

Query: 134 ---------RLLVGYGMGLLSYVVPVYIAEITPKNLRGGFTTVHQLMICIGVSMTYLIGA 184
                    R++ G G+GL S + P+YIAE+ P ++RG   + +Q  I  G  + Y +  
Sbjct: 124 GYVPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNY 183

Query: 185 FL------------NWRILALIGTIPCLVQLIGLCFIPESPRWLAKTGKGIESEAALQRL 232
           F+             WR +     IP L+ L+ L  +PESPRWL   GK  ++E  L+++
Sbjct: 184 FIARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKI 243

Query: 233 RGXXXXXXXXXXXXXXYTETLER-LSEGGILELFQRKYAHSLIVGVGLMVLQQFGGVN 289
            G                 +L+     GG L +F       +++GV L + QQF G+N
Sbjct: 244 MGNTLATQAVQEI----KHSLDHGRKTGGRLLMFG---VGVIVIGVMLSIFQQFVGIN 294


  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    0.144    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,017,011
Number of Sequences: 62578
Number of extensions: 265353
Number of successful extensions: 508
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 503
Number of HSP's gapped (non-prelim): 3
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
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)