interface graph thumbnail
legend  pdf

structure nameSTRUCTURE OF THE TRICHOMONAS VAGINALIS MYB3 DNA-BINDING DOMAIN BOUND TO A PROMOTER SEQUENCE REVEALS A UNIQUE C-TERMINAL BETA-HAIRPIN CONFORMATION
(MYB3)
referenceHsiao et al. 'Nucleic 40 449 2012
sourceTRICHOMONAS VAGINALIS
experimentX-ray (resolution=2.90, R-factor=0.218)
structural superfamilyHomeodomain-like;
sequence familyMyblike DNAbinding domain;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureKREDNKNNS

Estimated binding specificities ?

readout + contactlogo
# IC=6.915 IC/col=0.988 n_of_columns=7 specificity:   
A |   0  84  96   0   0  60  12
C |   0  12   0  96   0  12  12
G |   0   0   0   0  96  12  12
T |  96   0   0   0   0  12  60
scan!

Dendrogram of similar interfaces ?

matrix format
  
  KTRCECNA----DCNA--KANAHTNTSCTC   L       +-----------------------------1msf_C    
                                         +-1 
  KGRTEC--------NA--KGNA--NTST--       +-2 +-----------------------------1h89_C    
                                       ! ! 
  --------RT--RCET----SA--QAKT--   L --3 +-----------------------------6qec_A    
                                       ! 
  --------RGHCRGRGQA--QGKG------   L   +-----------------------------2glo_A    
                                     

home
updated Fri Sep 13 18:00:47 2024