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= 025785
         (248 letters)

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

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



>pdb|3H6G|A Chain A, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
           Assembly
 pdb|3H6G|B Chain B, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
           Assembly
 pdb|3H6H|A Chain A, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
           Assembly Mpd Form
 pdb|3H6H|B Chain B, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
           Assembly Mpd Form
 pdb|3QLV|C Chain C, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
           TETRAMER ASSEMBLY
 pdb|3QLV|D Chain D, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
           TETRAMER ASSEMBLY
 pdb|3QLV|F Chain F, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
           TETRAMER ASSEMBLY
 pdb|3QLV|H Chain H, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
           TETRAMER ASSEMBLY
 pdb|3QLV|J Chain J, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
           TETRAMER ASSEMBLY
          Length = 395

 Score = 29.3 bits (64), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 38/69 (55%), Gaps = 1/69 (1%)

Query: 51  KPVHHLLGGGKSADVLLWRNKKISASVLMGATAIWVLFEWLNYHFLTIVCFALVLGMLAQ 110
           KP+   +  GK   V+   + +++A +L  A A+ ++ E+ +Y F T+  FAL +    +
Sbjct: 181 KPLLKEMKRGKEFHVIFDCSHEMAAGILKQALAMGMMTEYYHYIFTTLDLFALDVEPY-R 239

Query: 111 FFWVNISGL 119
           +  VN++G 
Sbjct: 240 YSGVNMTGF 248


  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
   0.324    0.139    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,855,046
Number of Sequences: 62578
Number of extensions: 192893
Number of successful extensions: 219
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 218
Number of HSP's gapped (non-prelim): 1
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)