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= 003373
         (825 letters)

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

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



>pdb|1VZO|A Chain A, The Structure Of The N-Terminal Kinase Domain Of Msk1
           Reveals A Novel Autoinhibitory Conformation For A Dual
           Kinase Protein
          Length = 355

 Score = 32.0 bits (71), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 21/39 (53%)

Query: 787 IRQENLIHDENKLILLASLSDSLEYVADSIERQVLSCGC 825
           I+ EN++ D N  ++L     S E+VAD  ER    CG 
Sbjct: 185 IKLENILLDSNGHVVLTDFGLSKEFVADETERAYDFCGT 223


  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    0.132    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,247,386
Number of Sequences: 62578
Number of extensions: 879973
Number of successful extensions: 1937
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1935
Number of HSP's gapped (non-prelim): 3
length of query: 825
length of database: 14,973,337
effective HSP length: 107
effective length of query: 718
effective length of database: 8,277,491
effective search space: 5943238538
effective search space used: 5943238538
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: 56 (26.2 bits)