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= 035594
         (336 letters)

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

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



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

 Score = 32.7 bits (73), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 5/55 (9%)

Query: 93  TPEQLLALEEMYRRGTRTPSAEQIQHIASQLRRFGKIEGKNVFYWFQNHKARERQ 147
           TPEQL  L + Y   +  P+ + + HIA ++     ++ + V  WFQN +ARER+
Sbjct: 25  TPEQLEILYQKYLLDS-NPTRKMLDHIAHEV----GLKKRVVQVWFQNTRARERK 74


>pdb|3L1P|A Chain A, Pou Protein:dna Complex
 pdb|3L1P|B Chain B, Pou Protein:dna Complex
          Length = 155

 Score = 29.6 bits (65), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 9/53 (16%)

Query: 99  ALEEMYRRGTRTPSAEQIQHIASQLRRFGKIEGKNVFYWFQNHKARERQKRRR 151
           +LE M+ +  + PS +QI HIA+QL     +E   V  WF N     RQK +R
Sbjct: 110 SLETMFLKSPK-PSLQQITHIANQL----GLEKDVVRVWFSNR----RQKGKR 153


  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
   0.310    0.127    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,903,520
Number of Sequences: 62578
Number of extensions: 464567
Number of successful extensions: 782
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 780
Number of HSP's gapped (non-prelim): 13
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)