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= psy3961
         (371 letters)

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

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



>pdb|2XQ2|A Chain A, Structure Of The K294a Mutant Of Vsglt
          Length = 593

 Score = 75.9 bits (185), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 56/191 (29%), Positives = 95/191 (49%), Gaps = 6/191 (3%)

Query: 1   MEKSFGIVDYAVFILMLVISGAIGIYY-RFSGGKQKTNNEYLFGNRNQSLIPVAFSLMAS 59
           +E     +D  VF + + I   +G++  R   G QK+  +Y    ++     V  SL+A+
Sbjct: 4   IEHGLSFIDIMVFAIYVAIIIGVGLWVSRDKKGTQKSTEDYFLAGKSLPWWAVGASLIAA 63

Query: 60  FMSAITLMGLSAEIVTYGTQFVVINISYVLATPIVAHIYLPVFFKLGAVSVYEYLEKRFG 119
            +SA   +G+S    + G           +   IV   +LP+F + G  ++ E++EKRF 
Sbjct: 64  NISAEQFIGMSGSGYSIGLAIASYEWMSAITLIIVGKYFLPIFIEKGIYTIPEFVEKRFN 123

Query: 120 SATRLAASLA-FTVQMVLYMGI--ALYAPAIALEAVMGLSQFYSITLVGLVCLFYSTIGG 176
              +L   LA F + + +++ +   LY   +ALE ++G+   YSI  + L  L YS  GG
Sbjct: 124 K--KLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFALVYSIYGG 181

Query: 177 IKAVILTDVFQ 187
           + AV+ TDV Q
Sbjct: 182 LSAVVWTDVIQ 192


>pdb|2XQ2|B Chain B, Structure Of The K294a Mutant Of Vsglt
          Length = 593

 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 73/139 (52%), Gaps = 5/139 (3%)

Query: 52  VAFSLMASFMSAITLMGLSAEIVTYGTQFVVINISYVLATPIVAHIYLPVFFKLGAVSVY 111
           V  SL+A+ +SA   +G+S    + G           +   IV   +LP+F + G  ++ 
Sbjct: 56  VGASLIAANISAEQFIGMSGSGYSIGLAIASYEWMSAITLIIVGKYFLPIFIEKGIYTIP 115

Query: 112 EYLEKRFGSATRLAASLA-FTVQMVLYMGI--ALYAPAIALEAVMGLSQFYSITLVGLVC 168
           E++EKRF    +L   LA F + + +++ +   LY   +ALE ++G+   YSI  + L  
Sbjct: 116 EFVEKRFNK--KLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFA 173

Query: 169 LFYSTIGGIKAVILTDVFQ 187
           L YS  GG+ AV+ TDV Q
Sbjct: 174 LVYSIYGGLSAVVWTDVIQ 192


>pdb|3DH4|A Chain A, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
           GALACTOSE FROM Vibrio Parahaemolyticus
 pdb|3DH4|B Chain B, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
           GALACTOSE FROM Vibrio Parahaemolyticus
 pdb|3DH4|C Chain C, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
           GALACTOSE FROM Vibrio Parahaemolyticus
 pdb|3DH4|D Chain D, Crystal Structure Of SodiumSUGAR SYMPORTER WITH BOUND
           GALACTOSE FROM Vibrio Parahaemolyticus
          Length = 530

 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 73/139 (52%), Gaps = 5/139 (3%)

Query: 52  VAFSLMASFMSAITLMGLSAEIVTYGTQFVVINISYVLATPIVAHIYLPVFFKLGAVSVY 111
           V  SL+A+ +SA   +G+S    + G           +   IV   +LP+F + G  ++ 
Sbjct: 27  VGASLIAANISAEQFIGMSGSGYSIGLAIASYEWMSAITLIIVGKYFLPIFIEKGIYTIP 86

Query: 112 EYLEKRFGSATRLAASLA-FTVQMVLYMGI--ALYAPAIALEAVMGLSQFYSITLVGLVC 168
           E++EKRF    +L   LA F + + +++ +   LY   +ALE ++G+   YSI  + L  
Sbjct: 87  EFVEKRFNK--KLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFA 144

Query: 169 LFYSTIGGIKAVILTDVFQ 187
           L YS  GG+ AV+ TDV Q
Sbjct: 145 LVYSIYGGLSAVVWTDVIQ 163


  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
   0.328    0.140    0.428 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,775,378
Number of Sequences: 62578
Number of extensions: 352110
Number of successful extensions: 888
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 875
Number of HSP's gapped (non-prelim): 10
length of query: 371
length of database: 14,973,337
effective HSP length: 100
effective length of query: 271
effective length of database: 8,715,537
effective search space: 2361910527
effective search space used: 2361910527
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 52 (24.6 bits)