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= psy16064
         (515 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 = 44.7 bits (104), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 56/222 (25%), Positives = 96/222 (43%), Gaps = 43/222 (19%)

Query: 24  FYSIVLVVGIWAGTKQK--NHGEEEVMLAGRSIGKIVGVLTLIATWGGGSYFTGTAESLF 81
           + +I++ VG+W    +K      E+  LAG+S+       +LIA       F G + S +
Sbjct: 19  YVAIIIGVGLWVSRDKKGTQKSTEDYFLAGKSLPWWAVGASLIAANISAEQFIGMSGSGY 78

Query: 82  STGLLWCQAPVGYSLTLVAGALIFAKPMRDAGYITMLDPFQKTYGRRIGGLLFLPALLGD 141
           S GL         ++TL+     F     + G  T+ +  +K + +++  +L   A+   
Sbjct: 79  SIGLAIASYEWMSAITLIIVGKYFLPIFIEKGIYTIPEFVEKRFNKKLKTIL---AVFWI 135

Query: 142 MLYLSSVLSSLGKQAKASLLFLPALLGDMLYLSSVLSSLGKQAKASHYQVDLTGVSLKVI 201
            LY+   L+S+                  LYL                     G++L+ I
Sbjct: 136 SLYIFVNLTSV------------------LYLG--------------------GLALETI 157

Query: 202 LGISDYLSVTISTMFAVAYTISGGLYSVSYTDVLQLIFIVFG 243
           LGI    S+    +FA+ Y+I GGL +V +TDV+Q+ F+V G
Sbjct: 158 LGIPLMYSILGLALFALVYSIYGGLSAVVWTDVIQVFFLVLG 199


>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 = 42.0 bits (97), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 23/51 (45%), Positives = 35/51 (68%)

Query: 193 LTGVSLKVILGISDYLSVTISTMFAVAYTISGGLYSVSYTDVLQLIFIVFG 243
           L G++L+ ILGI    S+    +FA+ Y+I GGL +V +TDV+Q+ F+V G
Sbjct: 120 LGGLALETILGIPLMYSILGLALFALVYSIYGGLSAVVWTDVIQVFFLVLG 170



 Score = 31.6 bits (70), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 13/42 (30%), Positives = 27/42 (64%)

Query: 343 SGSMFTRNIYHQSFRPKASEYELMWVLRLSILAASVISCSIA 384
           + ++FT +IY +   P + +++L+ V R + + A +I+C IA
Sbjct: 344 TATIFTMDIYKEYISPDSGDHKLVNVGRTAAVVALIIACLIA 385


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

 Score = 42.0 bits (97), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 23/51 (45%), Positives = 35/51 (68%)

Query: 193 LTGVSLKVILGISDYLSVTISTMFAVAYTISGGLYSVSYTDVLQLIFIVFG 243
           L G++L+ ILGI    S+    +FA+ Y+I GGL +V +TDV+Q+ F+V G
Sbjct: 149 LGGLALETILGIPLMYSILGLALFALVYSIYGGLSAVVWTDVIQVFFLVLG 199


  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
   0.325    0.140    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,594,565
Number of Sequences: 62578
Number of extensions: 508293
Number of successful extensions: 1398
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1392
Number of HSP's gapped (non-prelim): 7
length of query: 515
length of database: 14,973,337
effective HSP length: 103
effective length of query: 412
effective length of database: 8,527,803
effective search space: 3513454836
effective search space used: 3513454836
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)