1ddn_B : 3D-footprint complex

structure name	DIPHTHERIA TOX REPRESSOR (C102D MUTANT)/TOX DNA OPERATOR COMPLEX (DIPHTHERIA TOX REPRESSOR)
reference	Vanderspek et al.
source	Corynebacterium diphtheriae
experiment	X-ray (resolution=3.00, R-factor=?)
structural superfamily	Iron-dependent repressor protein, dimerization domain;"Winged helix" DNA-binding domain;
sequence family	Iron dependent repressor, Nterminal D; Iron dependent repressor, metal bindin; MarR family;
multimeric complexes	1c0w_ABCD 1ddn_ABCD
redundant complexes	1c0w_D
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1ddn_B interface=35,37,38,40,41,45, dlvdttemylrtiyeleeegvtplrariaerleqSgPTvSQtvaRmerdglvvvasdrslqmtptgrtlatavmrkhrlaerlltdiigldinkvhdeadrwehvmsdeverrlvkvl
interface signature	SPTSQR

Estimated binding specificities ?

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# IC=5.005 IC/col=0.834 n_of_columns=6

specificity:

A |   7   9  96   9   0   7
C |   7   7   0   7   0   7
G |   7   7   0  73  96   7
T |  75  73   0   7   0  75

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Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: TOX REPRESSOR
ACAATTAGG	PubMed	1ddn_B(3.90e-05), 1c0w_D(3.90e-06)
ATAATTAGG	PubMed	1ddn_B(3.90e-05), 1c0w_D(3.90e-06)

Dendrogram of similar interfaces ?

matrix format

  
  ----RGSTRTSTHG------------   L                                     +3zpl_B    
                                       +-----------------------------1 
  --DCLT--AGTTRG--RG--------   L     +-2                             +5h3r_A    
                                     ! ! 
  --SG--PTPGTT--------HG----   L   +-3 +-----------------------------7d98_Q    
                                   ! ! 
  TT----KATTQTTGLTRTKA--FTYT   L --4 +-----------------------------2p7c_B    
                                   ! 
  --------------YG----------       +-----------------------------3eyi_B

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updated Fri Sep 13 15:30:32 2024