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= 013250
         (447 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 = 29.6 bits (65), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 19/33 (57%)

Query: 165 WKTVSKIMISRGCQVSPQQCEDKFNDLNKRYKK 197
           W+ +S  M  +G   SP  C DK+ +L K +KK
Sbjct: 36  WEQISSKMREKGFDRSPTMCTDKWRNLLKEFKK 68


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

 Score = 29.6 bits (65), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 19/33 (57%)

Query: 165 WKTVSKIMISRGCQVSPQQCEDKFNDLNKRYKK 197
           W+ +S  M  +G   SP  C DK+ +L K +KK
Sbjct: 36  WEQISSKMREKGFDRSPDMCTDKWRNLLKEFKK 68


>pdb|3UDU|A Chain A, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
 pdb|3UDU|B Chain B, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
 pdb|3UDU|C Chain C, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
 pdb|3UDU|D Chain D, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
 pdb|3UDU|E Chain E, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
 pdb|3UDU|F Chain F, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
 pdb|3UDU|G Chain G, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
 pdb|3UDU|H Chain H, Crystal Structure Of Putative 3-Isopropylmalate
           Dehydrogenase From Campylobacter Jejuni
          Length = 361

 Score = 28.9 bits (63), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 12/38 (31%), Positives = 22/38 (57%), Gaps = 5/38 (13%)

Query: 188 FNDLNKRYKKLNDILGKGLTCQVVENPALIDTMSCSHL 225
           + D+N  Y  +++        Q+V+NP++ D M CS+L
Sbjct: 213 YQDINLEYMYVDNA-----AMQIVKNPSIFDVMLCSNL 245


  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
   0.315    0.133    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,123,914
Number of Sequences: 62578
Number of extensions: 538772
Number of successful extensions: 870
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 867
Number of HSP's gapped (non-prelim): 5
length of query: 447
length of database: 14,973,337
effective HSP length: 102
effective length of query: 345
effective length of database: 8,590,381
effective search space: 2963681445
effective search space used: 2963681445
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)