4u0y_B : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAINS OF YVOA IN COMPLEX WITH PALINDROMIC OPERATOR DNA (HTH-type transcriptional repressor YvoA)
reference	Fillenberg et al. 'Nucleic 43 1283 2015
source	Bacillus subtilis subsp. subtilis str. 168
experiment	X-ray (resolution=1.91, R-factor=0.181)
structural superfamily	"Winged helix" DNA-binding domain;
sequence family	Bacterial regulatory proteins, gntR family;
multimeric complexes	4u0y_ABCD 4wwc_AB
redundant complexes	4wwc_B
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 4u0y_B interface=38,47,48,49,50,52, mninkqspipiyyqimeqlktqikngelqpdmplpseReyaeqfgiSRMTvRqalsnlvnegllyrlkgrgtfvs
interface signature	RSRMTR

Estimated binding specificities ?

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# IC=5.969 IC/col=0.853 n_of_columns=7

specificity:

A |   0   0   0   0  36  10  86
C |   5   0   0  18  32   9   6
G |   9  96  96   1  19   4   0
T |  82   0   0  77   9  73   4

scan!

Dendrogram of similar interfaces ?

matrix format

  
  --VTSARGTA--RT------   L               +-------------------6za3_B    
                                    +----1 
  --------------RCYGKT         +----2    +-------------------2acj_B    
                               !    ! 
  ----ITRGECSCSGKG----   L   +-3    +------------------------5i2d_R    
                             ! ! 
  RC--EGRTRGRGYT------   L --4 +-----------------------------4yo2_A    
                             ! 
  ----------------YG--       +-----------------------------3eyi_B

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updated Mon Jun 29 18:40:06 2026