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= 037543
         (120 letters)

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

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



>pdb|3GVO|A Chain A, Structure And Rna Binding Of The Mouse Pumilio-2 Puf
           Domain
 pdb|3GVT|A Chain A, Structure And Rna Binding Of The Mouse Pumilio-2 Puf
           Domain
 pdb|3GVT|B Chain B, Structure And Rna Binding Of The Mouse Pumilio-2 Puf
           Domain
          Length = 351

 Score = 26.9 bits (58), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 19/36 (52%)

Query: 8   KIMYMMQRRAKLNAVTPTIPMAIRAEKALEAIYVCC 43
           K++ + Q +   N V   +  A RAE+AL    VCC
Sbjct: 243 KVLALSQHKFASNVVEKCVTHASRAERALLIDEVCC 278


>pdb|3Q0Q|A Chain A, Crystal Structure Of The Pumilio-Homology Domain From
           Human Pumilio2 In Complex With P38alpha Nrea
 pdb|3Q0R|A Chain A, Crystal Structure Of The Pumilio-Homology Domain From
           Human Pumilio2 In Complex With P38alpha Nreb
 pdb|3Q0S|A Chain A, Crystal Structure Of The Pumilio-Homology Domain From
           Human Pumilio2 In Complex With Erk2 Nre
          Length = 351

 Score = 26.6 bits (57), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 19/36 (52%)

Query: 8   KIMYMMQRRAKLNAVTPTIPMAIRAEKALEAIYVCC 43
           K++ + Q +   N V   +  A RAE+AL    VCC
Sbjct: 243 KVLALSQHKFASNVVEKCVTHASRAERALLIDEVCC 278


  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
   0.318    0.131    0.364 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,627,686
Number of Sequences: 62578
Number of extensions: 76845
Number of successful extensions: 192
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 188
Number of HSP's gapped (non-prelim): 5
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
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)