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= 043220
         (121 letters)

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

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



>pdb|1SUJ|A Chain A, X-Ray Crystal Structure Of Ambystoma Tigrinum Cone
           Arrestin
          Length = 392

 Score = 32.0 bits (71), Expect = 0.079,   Method: Composition-based stats.
 Identities = 26/87 (29%), Positives = 42/87 (48%), Gaps = 6/87 (6%)

Query: 1   FSVTDEIHNNETREVANIEGNEKKENSR--SLFQVKCGQLRKF--CVVATKIRFHEVVIL 56
           FSVT  + NN  +    ++G  K E++   S   ++ G  ++    +V+ K++ H VV  
Sbjct: 269 FSVTPMLANNREKRGLALDGKLKHEDTNLASTTVIRPGMDKEVLGILVSYKVKVHLVVA- 327

Query: 57  ISSGSTANFVSDKVAALLPLPMMPTKP 83
              G   +  S  VA  LPL +M  KP
Sbjct: 328 -RGGILGDLTSSDVAVELPLTLMHPKP 353


>pdb|1F8V|A Chain A, The Structure Of Pariacoto Virus Reveals A Dodecahedral
           Cage Of Duplex Rna
 pdb|1F8V|B Chain B, The Structure Of Pariacoto Virus Reveals A Dodecahedral
           Cage Of Duplex Rna
 pdb|1F8V|C Chain C, The Structure Of Pariacoto Virus Reveals A Dodecahedral
           Cage Of Duplex Rna
          Length = 355

 Score = 26.9 bits (58), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 55  ILISSGSTANFVSDKVAALLPL-PMMPTKPFSVRIANGAHLKSPDVALDVKWSEQIGSI 112
           I  + G  ANFV  ++  L  + P+ P   +S    +GA+  + D + D +W + + S+
Sbjct: 195 ITPAPGVFANFVDKRINGLRGIRPLAPRDNYSGNFIDGAYTFAFDKSTDFEWCDFVRSL 253


>pdb|1CYG|A Chain A, Cyclodextrin Glucanotransferase (E.C.2.4.1.19) (Cgtase)
          Length = 680

 Score = 26.9 bits (58), Expect = 3.1,   Method: Composition-based stats.
 Identities = 10/25 (40%), Positives = 14/25 (56%)

Query: 18 IEGNEKKENSRSLFQVKCGQLRKFC 42
          ++GN     S +LF   C  LRK+C
Sbjct: 23 VDGNTSNNPSGALFSSGCTNLRKYC 47


  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
   0.317    0.131    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,340,688
Number of Sequences: 62578
Number of extensions: 106450
Number of successful extensions: 231
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 229
Number of HSP's gapped (non-prelim): 6
length of query: 121
length of database: 14,973,337
effective HSP length: 83
effective length of query: 38
effective length of database: 9,779,363
effective search space: 371615794
effective search space used: 371615794
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)