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legend  pdf

structure nameNMR SOLUTION STRUCTURE OF THE BICOID HOMEODOMAIN BOUND TO THE CONSENSUS DNA BINDING SITE TAATCC
(HOMEOTIC BICOID PROTEIN)
sourceDROSOPHILA MELANOGASTER
experimentNMR
structural superfamilyHomeodomain-like;
sequence familyHomeobox domain;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRIKNRR

Estimated binding specificities ?

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# IC=8.431 IC/col=1.054 n_of_columns=8 specificity:   
A |  13   0   0  96  13   0  96   0
C |  13   0   0   0  16   0   0   0
G |  54  96  96   0  13   0   0  96
T |  16   0   0   0  54  96   0   0
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: BICOID
TAATCCPubMed1zq3_P(3.74e-09)
TAATCCCPubMed1zq3_P(1.48e-07)

Dendrogram of similar interfaces ?

matrix format
  
  --RTQTVAQTNA------   L                                 +8osb_E    
                                         +---------------1 
  RART--VTKGNA--KA--   L             +---2               +2lkx_A    
                                     !   ! 
  --RT--IAQCNAMG----   L         +---3   +---------------1b72_A    
                                 !   ! 
  ------NCICNARGRG--   L   +-----4   +-------------------4xrm_B    
                           !     ! 
  --RC--IAQCNAYC----   L --5     +-----------------------3rkq_B    
                           ! 
  ------------YCFAKC   L   +-----------------------------6pe2_B

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updated Tue Dec 17 22:35:18 2024