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structure nameSTRUCTURE OF SCR/EXD COMPLEX BOUND TO A CONSENSUS HOX-EXD SITE
(HOMEOTIC PROTEIN SEX COMBS REDUCED)
referenceAggarwal et al. 'Cell(Cambridge,Mass.)' 131 530 2007
sourceDROSOPHILA MELANOGASTER
experimentX-ray (resolution=2.60, R-factor=0.255)
structural superfamilyHomeodomain-like;
sequence familyHomeobox domain;
multimeric complexes2r5y_AB 2r5z_AB
redundant complexes2r5z_A
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRIQNM

Estimated binding specificities ?

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# IC=6.648 IC/col=0.950 n_of_columns=7 specificity:   
A |  11   0   0  96   9  21   0
C |   0   0   0   0   9   9   0
G |   9   0   0   0  19  57  96
T |  76  96  96   0  59   9   0
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: EXD
ATCAATCAAPubMed2r5y_A(5.29e-03), 2r5y_AB(1.57e-06), 2r5z_AB(7.85e-04)
TGATNNATPubMed2r5y_AB(1.78e-05), 2r5z_AB(4.39e-03)
TGATTAATPubMed2r5y_AB(1.75e-07), 2r5z_AB(2.04e-08)
TGATTNATGGPubMed2r5y_A(1.52e-06), 2r5y_AB(5.83e-14), 2r5z_AB(1.90e-05)
TTGATTGATPubMed2r5y_A(5.29e-03), 2r5y_AB(1.57e-06), 2r5z_AB(7.85e-04)

Dendrogram of similar interfaces ?

matrix format
  
  RARA--IAQTNA----   L                  +-5ego_B    
                         +--------------1 
  --RT--NT--NAIARG   L   !              +-1b72_B    
                       --3 
  RCRT--VTQTNA--RG   L   !            +---8ejp_B    
                         +------------2 
  ----RTNT--NAIARG   L                +---4cyc_B

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updated Sat Jan 10 05:34:43 2026