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= psy10491
         (520 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1PW4|A Chain A, Crystal Structure Of The Glycerol-3-Phosphate Transporter
           From E.Coli
          Length = 451

 Score = 45.8 bits (107), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 60/277 (21%), Positives = 113/277 (40%), Gaps = 17/277 (6%)

Query: 31  HWTTFM-LFIGMANAYVMRTNMSVAIVAMTNPESSIHVDSKSWSTVERGLLLSSFFYGYV 89
            W  F+ +F G A  Y++R N ++A+          ++  + +S  + G  LS     Y 
Sbjct: 26  RWQIFLGIFFGYAAYYLVRKNFALAMP---------YLVEQGFSRGDLGFALSGISIAYG 76

Query: 90  LTQIPIGLLTKNHDSHKMLAYGMVVNA---VFALLVPVSSQSIWCLAAVRFIQGMGEGPI 146
            ++  +G ++   +    L  G+++ A   +F   VP ++ SI  +  + F+ G  +G  
Sbjct: 77  FSKFIMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFVLLFLCGWFQGMG 136

Query: 147 VPCTHAILAKWIPPGERSFLGGIVYSGAQFGTIISYPVSGYLAYGTFLQGWPAIFYVFGV 206
            P     +  W    ER  +  +       G  I  P   +L    +   W A  Y+   
Sbjct: 137 WPPCGRTMVHWWSQKERGGIVSVWNCAHNVGGGI--PPLLFLLGMAWFNDWHAALYM-PA 193

Query: 207 ICLIWCVLFIF-LVYENPHSDKRVSVEEKEYILYSIFGGDIIEDLKASSIPWGDIVKSGP 265
            C I   LF F ++ + P S     +EE +      +     ++L A  I    ++ +  
Sbjct: 194 FCAILVALFAFAMMRDTPQSCGLPPIEEYKNDYPDDYNEKAEQELTAKQIFMQYVLPNKL 253

Query: 266 FLSILVAHMGQNFGYETLMTMLPTFLKEVLHFDMIKN 302
              I +A++        ++   PT+LKEV HF + K+
Sbjct: 254 LWYIAIANVFVYLLRYGILDWSPTYLKEVKHFALDKS 290


>pdb|3O7P|A Chain A, Crystal Structure Of The E.Coli Fucose:proton Symporter,
           Fucp (N162a)
          Length = 438

 Score = 31.2 bits (69), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 29/111 (26%), Positives = 49/111 (44%), Gaps = 2/111 (1%)

Query: 73  STVERGLLLSSFFYGYVLTQIPIGLLTKNHDSHKMLAYGMVVNAVFALLV-PVSSQSIWC 131
           +  + GL+ S+F++GY +  IP G+L K       +  G+ + A+ A L  P +    + 
Sbjct: 59  TNFQAGLIQSAFYFGYFIIPIPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNYT 118

Query: 132 LAAV-RFIQGMGEGPIVPCTHAILAKWIPPGERSFLGGIVYSGAQFGTIIS 181
           L  V  FI   G G +    +  +    P     F   +  + A FG II+
Sbjct: 119 LFLVGLFIIAAGLGCLETAANPFVTVLGPESSGHFRLNLAQTFASFGAIIA 169


>pdb|3O7Q|A Chain A, Crystal Structure Of A Major Facilitator Superfamily (Mfs)
           Transporter, Fucp, In The Outward Conformation
          Length = 438

 Score = 29.3 bits (64), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 27/49 (55%)

Query: 73  STVERGLLLSSFFYGYVLTQIPIGLLTKNHDSHKMLAYGMVVNAVFALL 121
           +  + GL+ S+F++GY +  IP G+L K       +  G+ + A+ A L
Sbjct: 59  TNFQAGLIQSAFYFGYFIIPIPAGILMKKLSYKAGIITGLFLYALGAAL 107


  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    0.141    0.450 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,172,116
Number of Sequences: 62578
Number of extensions: 619432
Number of successful extensions: 1281
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1278
Number of HSP's gapped (non-prelim): 8
length of query: 520
length of database: 14,973,337
effective HSP length: 103
effective length of query: 417
effective length of database: 8,527,803
effective search space: 3556093851
effective search space used: 3556093851
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: 54 (25.4 bits)