1fjl_B : 3D-footprint complex

structure name	HOMEODOMAIN FROM THE DROSOPHILA PAIRED PROTEIN BOUND TO A DNA OLIGONUCLEOTIDE (PAIRED PROTEIN)
reference	Wilson et al. 'Cell(Cambridge,Mass.)' 82 709 1995
source	Drosophila melanogaster
experiment	X-ray (resolution=2.00, R-factor=0.198)
structural superfamily	Homeodomain-like;
sequence family	Homeobox domain;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1fjl_B interface=2,5,47,50,51, qRrsRttfsasqldelerafertqypdiytreelaqrtnlteariqVwfQNrrarlrk
interface signature	RRVQN

Estimated binding specificities ?

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# IC=5.339 IC/col=0.763 n_of_columns=7

specificity:

A |   9   0  96  96   9  24  69
C |   9   0   0   0  11  24   9
G |  67   0   0   0   9  24   9
T |  11  96   0   0  67  24   9

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: PAIRED
GTTAT	PubMed	1fjl_B(6.06e-03)
TAATT	PubMed	1fjl_B(1.01e-03)
TAATGTTATTA	PubMed	1fjl_B(1.06e-03)

Dendrogram of similar interfaces ?

matrix format

  
  --RT--IAQCNAMG--   L                        +---1b72_A    
                                 +------------2 
  RART--VTKGNA--KA   L           !            +---2lkx_A    
                           +-----3 
  --RTQTVAQTNA----   L     !     !               +8osb_E    
                         +-4     +---------------1 
  ------NCICNARGRG   L   ! !                     +4xrm_B    
                       --5 ! 
  --RC--IAQCNAYC--   L   ! +----------------------3rkq_B    
                         ! 
  ------VTCCNAQA--   L   +------------------------8g87_X

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updated Fri Sep 13 15:36:10 2024