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= 027928
         (217 letters)

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

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



>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
          Length = 97

 Score = 29.3 bits (64), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 12/83 (14%)

Query: 67  KRNPPQVET-------HPGGTRWNPTQEQIGILEMLYRGGMRTPNAQQIEQITAQLGKYG 119
           KRNPP+           P G R N T  Q+  LE  +        A+++E I A L    
Sbjct: 17  KRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVE-IAATL---- 71

Query: 120 KIEGKNVFYWFQNHKARERQKQK 142
           ++    V  WFQN + +++++++
Sbjct: 72  ELNETQVKIWFQNRRMKQKKRER 94


>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
           Binding Transcription Factor 1 (Atbf1)
          Length = 80

 Score = 29.3 bits (64), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 6/50 (12%)

Query: 92  LEMLYRGGM--RTPNAQQIEQITAQLGKYGKIEGKNVFYWFQNHKARERQ 139
           LE+LY+  +    P  + ++ I  ++G    ++ + V  WFQN +ARER+
Sbjct: 29  LEILYQKYLLDSNPTRKMLDHIAHEVG----LKKRVVQVWFQNTRARERK 74


  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
   0.316    0.133    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,496,325
Number of Sequences: 62578
Number of extensions: 243732
Number of successful extensions: 369
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: 368
Number of HSP's gapped (non-prelim): 5
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)