5ddg_A : 3D-footprint complex

structure name	THE STRUCTURE OF TRANSCRIPTIONAL FACTOR ARAR FROM BACTEROIDES THETAIOTAOMICRON VPI IN COMPLEX WITH TARGET DOUBLE STRAND DNA
reference	Midwest Center for Structural Genomics (MCSG)
experiment	X-ray (resolution=3.06, R-factor=0.201)
structural superfamily	Nudix;"Winged helix" DNA-binding domain;
sequence family	NUDIX domain;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5ddg_A interface=179,180,181,182,184,185,205,206, amknyyssnptfylgidciifgfnegeisllllkrnfepamgewslmggfvqkdesvddaakrvlaeltglenvymeqvgafgaidrdpgervvsiayyalinineydrelvqkhnaywvninelpalifdhpemvdkaremmkqkasvepigfnllpklftlsqlqslyeaiygepmDKRNfRKrvaemdfiektdkidklgsKRgaalykfngkayrkdpkfkl
interface signature	DKRNRKKR

Estimated binding specificities ?

readout + contact

# IC=8.574 IC/col=0.953 n_of_columns=9

specificity:

A |  81  74  80  76   0   0   0   0   5
C |   5   5   5   5   0   0   1   0   6
G |   5  12   6   5  96   0  90   0   5
T |   5   5   5  10   0  96   5  96  80

scan!

Dendrogram of similar interfaces ?

matrix format

  
  ------DCKGRGNA--RTKT--------KGRA   L             +-------------------5ddg_A    
                                             +-----1 
  SCHC----------------------------   L     +-2     +-------------------7ef9_A    
                                           ! ! 
  ----LTNTHGTA--------------KG--QA   L   +-3 +-------------------------2efw_A    
                                         ! ! 
  ------------------HT--STLT------   L --4 +--------------------------7cby_C    
                                         ! 
  ----------QTNAST--NTSTLA--------   L   +---------------------------2hdc_A

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updated Mon Dec 18 12:29:26 2023