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legend  pdf

structure nameNKX2.5 HOMEODOMAIN DIMER BOUND TO ANF-242 DNA
(Homeobox protein Nkx-2.5)
referenceKasahara et al. Biochemistry 51 6312 2012
sourceHomo sapiens
experimentX-ray (resolution=1.70, R-factor=?)
structural superfamilyHomeodomain-like;
sequence familyHomeobox domain;
multimeric complexes3rkq_AB 4s0h_AB 4s0h_EF
redundant complexes4s0h_B
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRIQNY

Estimated binding specificities ?

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# IC=5.800 IC/col=0.829 n_of_columns=7 specificity:   
A |   6  16  65  96   5  90   5
C |  20  55   5   0   0   1   0
G |   5   5  20   0  90   5  90
T |  65  20   6   0   1   0   1
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: NKX2.5
CAAGTGPubMed3rkq_B(7.04e-05), 3rkq_AB(5.82e-04), 4s0h_EF(2.07e-04), ... (total=5)
TNNAGTGPubMed3rkq_AB(6.04e-03), 4s0h_B(1.14e-02)

Dendrogram of similar interfaces ?

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

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updated Sat Jan 10 06:26:01 2026