6pax_A : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF THE HUMAN PAX-6 PAIRED DOMAIN-DNA COMPLEX REVEALS A GENERAL MODEL FOR PAX PROTEIN-DNA INTERACTIONS (HOMEOBOX PROTEIN PAX-6)
reference	Epstein et al. 'Genes 13 1263 1999
source	Homo sapiens
experiment	X-ray (resolution=2.50, R-factor=0.233)
structural superfamily	Homeodomain-like;
sequence family	'Paired box' domain;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6pax_A interface=14,16,46,47,49,51,52,68,71,74,116,117,118,119,121,122,125, shsgvnqlggvfvNgRplpdstrqrivelahsgarpcdisrilqvSNgCvSKilgryyatgsirpraIggSkpRvatpevvskiaqykqecpsifaweirdrllsegvctndnipSVSSiNRvlRnlasekqq
interface signature	NRSNCSKISRSVSSNRR

Estimated binding specificities ?

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# IC=9.369 IC/col=0.781 n_of_columns=12

specificity:

A |  96   0   0  11  48  24  24  38   0   2   0   1
C |   0  96   0  38   7  24  24  53   0   1   0  76
G |   0   0  96  24  20  24  24   1  96   1  96   0
T |   0   0   0  23  21  24  24   4   0  92   0  19

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 Tue Dec 19 14:03:35 2023