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= 024859
         (261 letters)

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

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



>pdb|2L9R|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Homeobox
          Protein Nkx-3.1 From Homo Sapiens, Northeast Structural
          Genomics Consortium Target Hr6470a
          Length = 69

 Score = 30.4 bits (67), Expect = 1.1,   Method: Composition-based stats.
 Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 3/41 (7%)

Query: 44 EKFSESPERK---GKIMVQMKQVWNWFQNRRYAIRAKSIKS 81
          +K+  +PER      + +   QV  WFQNRRY  + K + S
Sbjct: 26 QKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQLSS 66


>pdb|1WGS|A Chain A, Solution Structure Of The Tudor Domain From Mouse
           Hypothetical Protein Homologous To Histone
           Acetyltransferase
          Length = 133

 Score = 27.7 bits (60), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 12/42 (28%), Positives = 17/42 (40%)

Query: 152 DGAWYDVSAFLAQRNFDTADPEVQVRFAGFGAEEDEWVNIKR 193
           D  W+      ++ N      E  V + GF    DEWV+  R
Sbjct: 25  DSTWHSAEVIQSRVNDQEGREEFYVHYVGFNRRLDEWVDKNR 66


  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    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,026,557
Number of Sequences: 62578
Number of extensions: 243046
Number of successful extensions: 606
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 605
Number of HSP's gapped (non-prelim): 5
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
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: 50 (23.9 bits)