4fb3_A : 3D-footprint complex

structure name	POLYOMAVIRUS T-AG BINDS SYMMETRICAL REPEATS AT THE VIRAL ORIGIN IN AN ASYMMETRICAL MANNER (Large T antigen)
reference	Schaffhausen et al. J.Virol. 87 13751 2013
source	Mouse polyomavirus
experiment	X-ray (resolution=3.79, R-factor=0.223)
structural superfamily	Origin of replication-binding domain, RBD-like;
sequence family	Origin of replication binding protein;
multimeric complexes	4fb3_ABE
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 4fb3_A interface=17,18,19,20,68, sdfpssltgylshaiySNKTfpaflvystkekckqlydtigkfrpefkclvhyeeggmlffltmtkhRvsavknycsklcsvsflmckavtkpmecyqvvtaapfqlitenkpgl
interface signature	SNKTR

Estimated binding specificities ?

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# IC=3.272 IC/col=0.467 n_of_columns=7

specificity:

A |   2  12  13   6   8  12  18
C |   1  12  57  78  70  60  42
G |  92  60  13   6  10  12  18
T |   1  12  13   6   8  12  18

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Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: T-ag
GAGGC	PubMed	4fb3_A(6.47e-03), 4fb3_ABE(8.03e-05)

Dendrogram of similar interfaces ?

matrix format

  
  --SGNGKGTCRG   L                         +4fb3_A    
                                         +-1 
  --SANGKGTCRG   L   +-------------------2 +3qfq_B    
                     !                   ! 
  FGSANGRGTCRG   L --3                   +4gdf_A    
                     ! 
  --SANGRG--RC   L   +-------------------2itl_B

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updated Tue Dec 19 08:45:16 2023