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= psy7380
         (72 letters)

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

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



>pdb|1H6F|A Chain A, Human Tbx3, A Transcription Factor Responsible For Ulnar-
           Mammary Syndrome, Bound To A Palindromic Dna Site
 pdb|1H6F|B Chain B, Human Tbx3, A Transcription Factor Responsible For Ulnar-
           Mammary Syndrome, Bound To A Palindromic Dna Site
          Length = 193

 Score = 36.6 bits (83), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 15/20 (75%), Positives = 19/20 (95%)

Query: 14  EITKLKIDSNPFAKGFRDSS 33
           +IT+LKID+NPFAKGFRD+ 
Sbjct: 170 KITQLKIDNNPFAKGFRDTG 189


>pdb|4A04|A Chain A, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
           Transcription Factor Associated With The Digeorge
           Syndrome
 pdb|4A04|B Chain B, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
           Transcription Factor Associated With The Digeorge
           Syndrome
          Length = 203

 Score = 35.0 bits (79), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 15/17 (88%), Positives = 16/17 (94%)

Query: 15  ITKLKIDSNPFAKGFRD 31
           IT+LKI SNPFAKGFRD
Sbjct: 187 ITQLKIASNPFAKGFRD 203


>pdb|2X6U|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Free Form
 pdb|2X6V|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
           Free Form
 pdb|2X6V|B Chain B, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
           Free Form
          Length = 203

 Score = 34.3 bits (77), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 14/19 (73%), Positives = 18/19 (94%)

Query: 14  EITKLKIDSNPFAKGFRDS 32
           +IT+LKI++NPFAKGFR S
Sbjct: 173 KITQLKIENNPFAKGFRGS 191


>pdb|1XBR|A Chain A, T Domain From Xenopus Laevis Bound To Dna
 pdb|1XBR|B Chain B, T Domain From Xenopus Laevis Bound To Dna
          Length = 184

 Score = 30.4 bits (67), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 13/20 (65%), Positives = 15/20 (75%)

Query: 13  KEITKLKIDSNPFAKGFRDS 32
           +EIT LKI  NPFAK F D+
Sbjct: 161 EEITALKIKHNPFAKAFLDA 180


  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
   0.321    0.138    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,338,036
Number of Sequences: 62578
Number of extensions: 77315
Number of successful extensions: 135
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 128
Number of HSP's gapped (non-prelim): 8
length of query: 72
length of database: 14,973,337
effective HSP length: 42
effective length of query: 30
effective length of database: 12,345,061
effective search space: 370351830
effective search space used: 370351830
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)