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= psy12694
         (112 letters)

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

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



>pdb|2FF0|A Chain A, Solution Structure Of Steroidogenic Factor 1 Dna Binding
          Domain Bound To Its Target Sequence In The Inhibin
          Alpha- Subunit Promoter
          Length = 102

 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 19/21 (90%), Positives = 19/21 (90%)

Query: 1  MRGGRNKFGPMYKRDRARKLQ 21
          MRGGRNKFGPMYKRDRA K Q
Sbjct: 79 MRGGRNKFGPMYKRDRALKQQ 99


>pdb|2A66|A Chain A, Human Liver Receptor Homologue Dna-Binding Domain (Hlrh-1
           Dbd) In Complex With Dsdna From The Hcyp7a1 Promoter
          Length = 113

 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/21 (90%), Positives = 19/21 (90%)

Query: 1   MRGGRNKFGPMYKRDRARKLQ 21
           MRGGRNKFGPMYKRDRA K Q
Sbjct: 87  MRGGRNKFGPMYKRDRALKQQ 107


  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    0.133    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,630,343
Number of Sequences: 62578
Number of extensions: 65039
Number of successful extensions: 180
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 178
Number of HSP's gapped (non-prelim): 2
length of query: 112
length of database: 14,973,337
effective HSP length: 76
effective length of query: 36
effective length of database: 10,217,409
effective search space: 367826724
effective search space used: 367826724
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)