2hdd_A : 3D-footprint complex

structure name	ENGRAILED HOMEODOMAIN Q50K VARIANT DNA COMPLEX (PROTEIN ENGRAILED HOMEODOMAIN Q50K)
reference	Tucker-Kellogg et al. Structure 5 1047 1997
source	Drosophila melanogaster
experiment	X-ray (resolution=1.90, R-factor=0.205)
structural superfamily	Homeodomain-like;
sequence family	Homeobox domain;
multimeric complexes	2hdd_AB
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 2hdd_A interface=1,42,43,46,47, RtafsseqlarlkrefnenrylterrrqqlsselglneaqiKIwfKNkrakikks
interface signature	RKIKN

Estimated binding specificities ?

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# IC=7.730 IC/col=0.966 n_of_columns=8

specificity:

A |  14   8   0  66   0   0  96   9
C |  14   0   0  16   0   0   0  73
G |   7  88  96   7   0   0   0   7
T |  61   0   0   7  96  96   0   7

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: ENGRAILED
TAATTA	PubMed	2hdd_A(3.37e-03), 1hdd_CD(1.68e-04), 3hdd_AB(7.09e-04), ... (total=5)
TAATCC	PubMed	2hdd_A(8.29e-10), 2hdd_AB(8.67e-08), 3hdd_A(3.43e-03), ... (total=4)
TTAATT	PubMed	2hdd_A(3.37e-03), 3hdd_A(3.43e-03), 1hdd_C(3.41e-03)
TAATNN	PubMed	2hdd_A(3.37e-03), 3hdd_A(3.43e-03), 1hdd_C(3.41e-03)
TTAATTGCAT	PubMed	3hdd_AB(9.75e-03), 3hdd_A(7.13e-03)

Dendrogram of similar interfaces ?

matrix format

  
  QTVAQTNA------   L                                  +8osb_E    
                                      +---------------1 
  --VTKGNA--KA--   L              +---2               +2lkx_A    
                                  !   ! 
  --IAQCNAMG----   L          +---3   +---------------1b72_A    
                              !   ! 
  --NCRG--------   L        +-4   +-------------------4xrm_B    
                            ! ! 
  --IAQCNAYC----   L   +----5 +-----------------------3rkq_B    
                       !    ! 
  --VTCCNAQA--RT   L --6    +------------------------8g87_X    
                       ! 
  --------YCFAKC   L   +-----------------------------6pe2_B

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updated Tue Dec 17 22:47:38 2024