1dsz_A : 3D-footprint complex

structure name	STRUCTURE OF THE RXR/RAR DNA-BINDING DOMAIN HETERODIMER IN COMPLEX WITH THE RETINOIC ACID RESPONSE ELEMENT DR1 (RETINOIC ACID RECEPTOR ALPHA)
reference	Khorasanizadeh et al. 'EMBO 19 1045 2000
source	HOMO SAPIENS
experiment	X-ray (resolution=1.70, R-factor=0.201)
structural superfamily	Glucocorticoid receptor-like DNA-binding domain;
sequence family	Zinc finger, C4 type two domains;
multimeric complexes	1dsz_AB 6xwg_CD
redundant complexes	6xwg
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1dsz_A interface=20,23,27,28, pcfvcqdkssgyhygvsacEgcKgffRRsiqknmvytchrdknciinkvtrnrcqycrlqkcfevgmskesvrnd
interface signature	EKRR

Estimated binding specificities ?

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# IC=4.434 IC/col=0.887 n_of_columns=5

specificity:

A |   0   0  13   0  54
C |   0   0  16  96  13
G |  96  96  13   0  16
T |   0   0  54   0  13

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Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: RAR
TGACC	PubMed	1dsz_A(2.59e-08), 1dsz_AB(1.44e-05), 6xwg_D(1.20e-03)
TGATGTCA	PubMed	1dsz_A(1.79e-03)
AGGTCA	PubMed	1dsz_A(1.21e-07), 1dsz_AB(1.67e-04), 6xwg_CD(2.53e-03), ... (total=4)

Dendrogram of similar interfaces ?

matrix format

  
  CAECKG--KGRG--   L                          +---1cit_A    
                                +-------------2 
  --EAKG--KTRG--   L        +---3             +---4umm_A    
                            !   ! 
  ----KGVT--RG--   L   +----4   +-----------------2c7a_B    
                       !    ! 
  --ECKGAG--RG--   L --5    +---------------------4ond_A    
                       ! 
  --ECKGAGKGRG--   L   !                         +1hcq_E    
                       +-------------------------1 
  --ECKGAG--KTRG   L                             +4aa6_B

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updated Sat Jan 10 04:33:51 2026