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structure nameANTPHD WITH 15BP DNA DUPLEX R-MONOTHIOATED AT CYTIDINE-8
(Homeotic protein antennapedia)
referenceZandarashvili et al. Chembiochem 17 1636 2016
sourceDrosophila melanogaster
experimentX-ray (resolution=2.09, R-factor=0.219)
structural superfamilyHomeodomain-like;
sequence familyHomeobox domain;
redundant complexes1ahd_P 4xic_D 4xid_D 5jlx_D 9ant_B
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRRIQN

Estimated binding specificities ?

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# IC=5.339 IC/col=0.890 n_of_columns=6 specificity:   
A |   9  67   0   0  69   0
C |  67   9   0   0   9   0
G |   9  11   0   0   9  96
T |  11   9  96  96   9   0
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: ANTENNAPEDIA
TAATGPubMed5jlw_D(1.20e-07), 4xic_A(3.59e-04), 4xid_D(7.10e-07), ... (total=5)
CCAATPubMed5jlw_D(2.85e-03), 4xic_A(2.64e-03), 4xid_D(6.05e-03), ... (total=5)
TTAATTPubMed5jlw_D(1.12e-03), 4xic_A(1.13e-03), 4xid_D(3.38e-03), ... (total=5)

Dendrogram of similar interfaces ?

matrix format
  
  RA------------IAQTNA----   L                                   +-5ego_B    
                                                  +--------------1 
  RT------------NT--NAIARG   L       +------------2              +-1b72_B    
                                     !            ! 
  --RT----------NT--NAIARG   L     +-3            +----------------4cyc_B    
                                   ! ! 
  RT------------VTQTNA--RG   L   +-4 +-----------------------------8ejp_B    
                                 ! ! 
  ----STRGQTQAST----------   L --5 +-----------------------------7t8k_B    
                                 ! 
  ----------STTAQCST------       +-----------------------------8b4b_W

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updated Sat Jan 10 08:23:34 2026