7dvv_A : 3D-footprint complex

structure name	HEME SENSOR PROTEIN PEFR FROM STREPTOCOCCUS AGALACTIAE BOUND TO OPERATOR DNA (28-MER) (HTH marR-type domain-containing protein)
reference	Nishinaga et al. 'Commun 4 467 2021
source	Streptococcus agalactiae serotype III (strain NEM316) / Streptococcus agalactiae serotype III (strain NEM316)
experiment	X-ray (resolution=2.49, R-factor=0.219)
structural superfamily	"Winged helix" DNA-binding domain;
sequence family	MarR family;
multimeric complexes	7dvv_AB
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 7dvv_A interface=60,61,62,63,65,66,69,70,87, nplqkarilvnqlekyldryakeydvehlagpqghlvmhlykhpdkdmsikdaeeilhiSKSVaSNlvKRmekngfiaivpsktdkRvkylylthlgkqkatqfeifleklhstmlagitkeeirttkkvirtlaknma
interface signature	SKSVSNKRR

Estimated binding specificities ?

readout + contact

# IC=8.936 IC/col=0.993 n_of_columns=9

specificity:

A |  96   0  56   0   0   0  96   8  16
C |   0   0   8   0   0   0   0   8  48
G |   0   0  16  96   0   0   0   8  16
T |   0  96  16   0  96  96   0  72  16

scan!

Dendrogram of similar interfaces ?

matrix format

  
  ----RGSTRTSTHG--------RA----   L         +-----------------------------3zpl_B    
                                         +-1 
  --DCLT--AGTTRG----RG--RA----   L     +-2 +-----------------------------5h3r_A    
                                       ! ! 
  TT----KATTQTTG--LTRTKA--FTYT   L   +-3 +-----------------------------2p7c_B    
                                     ! ! 
  ----------------YG----------     --4 +-----------------------------3eyi_B    
                                     ! 
  ----------NCTTNAVTNT--------   L   +-----------------------------1pp7_U

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updated Wed Dec 18 08:39:11 2024