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= 038571
         (321 letters)

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

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



>pdb|2JMW|A Chain A, Structure Of Dna-Binding Domain Of Arabidopsis Gt-1
          Length = 86

 Score = 38.5 bits (88), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 9/77 (11%)

Query: 37  RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPV 96
           R   W + ET  LI  +R ++     F TS S      ++  W+ ++S  ++ G +R P 
Sbjct: 3   RAETWVQDETRSLIMFRRGMDGL---FNTSKS------NKHLWEQISSKMREKGFDRSPT 53

Query: 97  QCRKRWGNLLVDFRKIK 113
            C  +W NLL +F+K K
Sbjct: 54  MCTDKWRNLLKEFKKAK 70


>pdb|2EBI|A Chain A, Arabidopsis Gt-1 Dna-Binding Domain With T133d
           Phosphomimetic Mutation
          Length = 86

 Score = 37.4 bits (85), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 9/77 (11%)

Query: 37  RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPV 96
           R   W + ET  LI  +R ++     F TS S      ++  W+ ++S  ++ G +R P 
Sbjct: 3   RAETWVQDETRSLIMFRRGMDGL---FNTSKS------NKHLWEQISSKMREKGFDRSPD 53

Query: 97  QCRKRWGNLLVDFRKIK 113
            C  +W NLL +F+K K
Sbjct: 54  MCTDKWRNLLKEFKKAK 70


  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
   0.313    0.127    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,872,932
Number of Sequences: 62578
Number of extensions: 321149
Number of successful extensions: 672
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 8
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)