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= 016317
         (391 letters)

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

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



>pdb|3NUT|A Chain A, Crystal Structure Of The Methyltransferase Cobj
 pdb|3NUT|B Chain B, Crystal Structure Of The Methyltransferase Cobj
 pdb|3NUT|C Chain C, Crystal Structure Of The Methyltransferase Cobj
 pdb|3NUT|D Chain D, Crystal Structure Of The Methyltransferase Cobj
          Length = 251

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 27/55 (49%)

Query: 13  PGTMVLVISWVTTLNTMWQMINLHECVPGVRFDRYIDLGRHAFGPKLGPWIVLPQ 67
           PG ++L    VTT      ++ L +  P +   R + L  +A   ++GPW+  P+
Sbjct: 193 PGRLILFARAVTTPEQAISVVELRDATPEMADMRTVVLVGNAATRRVGPWVYTPR 247


>pdb|3BXJ|A Chain A, Crystal Structure Of The C2-Gap Fragment Of Syngap
 pdb|3BXJ|B Chain B, Crystal Structure Of The C2-Gap Fragment Of Syngap
          Length = 483

 Score = 30.0 bits (66), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 27/63 (42%)

Query: 5   TWDGIYMGPGTMVLVISWVTTLNTMWQMINLHECVPGVRFDRYIDLGRHAFGPKLGPWIV 64
           T    ++G     L + W +    ++++ NL        F+ YIDLGR         W V
Sbjct: 389 TSKEDFLGFMNEFLELEWGSMQQFLYEISNLDTLTNSSSFEGYIDLGRELSTLHALLWEV 448

Query: 65  LPQ 67
           LPQ
Sbjct: 449 LPQ 451


  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
   0.329    0.142    0.477 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,485,923
Number of Sequences: 62578
Number of extensions: 372008
Number of successful extensions: 1003
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1001
Number of HSP's gapped (non-prelim): 3
length of query: 391
length of database: 14,973,337
effective HSP length: 101
effective length of query: 290
effective length of database: 8,652,959
effective search space: 2509358110
effective search space used: 2509358110
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)