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structure nameCRYSTAL STRUCTURE OF THE HUMAN PAX-6 PAIRED DOMAIN-DNA COMPLEX REVEALS A GENERAL MODEL FOR PAX PROTEIN-DNA INTERACTIONS
(HOMEOBOX PROTEIN PAX-6)
referenceEpstein et al. 'Genes 13 1263 1999
sourceHomo sapiens
experimentX-ray (resolution=2.50, R-factor=0.233)
structural superfamilyHomeodomain-like;
sequence family'Paired box' domain;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureNRSNCSKISRSVSSNRR

Estimated binding specificities ?

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# IC=9.142 IC/col=0.762 n_of_columns=12 specificity:   
A |   6   6  78   0   6  24  24  11  13   0   0   0
C |   1  86   6  87   3  24  24  13   9  96   0   0
G |  89   1   6   3  71  24  24   3  65   0  96   0
T |   0   3   6   6  16  24  24  69   9   0   0  96
scan!

Dendrogram of similar interfaces ?

matrix format
  
  HGSGRGHGRT--RT--STKGRGTTLGNT--------   L           +-----------------------------1u78_A    
                                                   +-1 
  --------------RT----------ITQCNAACRG   L       +-2 +-----------------------------6a8r_A    
                                                 ! ! 
  --------------------------VAQTNA----   L     +-3 +-----------------------------1fjl_B    
                                               ! ! 
  ----------KG--RT----------IAQCNAYA--   L   +-4 +-----------------------------1nk2_P    
                                             ! ! 
  ------------------------RTVAITNAMCRG   L --5 +-----------------------------1yrn_A    
                                             ! 
  --------------------------VAQTNA----   L   +-----------------------------5hod_A    
                                           

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updated Sun Aug 3 12:37:37 2025