3m4a_A : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF A BACTERIAL TOPOISOMERASE IB IN COMPLEX WITH DNA REVEALS A SECONDARY DNA BINDING SITE (Putative Type I topoisomerase)
reference	Yakovleva et al. Structure 18 725 2010
source	Deinococcus radiodurans
experiment	X-ray (resolution=1.65, R-factor=0.195)
structural superfamily	DNA breaking-rejoining enzymes;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3m4a_A interface=81,153, psrtellarrariarlavppayqdvyvspdaenelqafgrdaarlqyryhpdfvalkkwqrltrfagalptlkvattadlRasglpprkvmalmtrllhvarfrvgsdiyarqhktyglstlrqrhvvvdgntvtfrfkgkhgvsqhkatsdRtlaanmqklldlpgpwlfqtvdaggerrrihstelnaylrevigpftakdfrtwggtllaaeylaqqgtesserqakkvlvdcvkfvaddlgntpavtrgsyicpvifdryldgkvlddyeprterqeaelegltrsegalkrmlesertl
interface signature	RR

Estimated binding specificities ?

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# IC=3.968 IC/col=0.661 n_of_columns=6

specificity:

A |  11   0   0  11  24   9
C |   9  96   0  67  24  67
G |  67   0  96   9  24   9
T |   9   0   0   9  24  11

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Dendrogram of similar interfaces ?

matrix format

  
  RG----------RG------   L     +------------3m4a_A    
                             +-2 
  --KGKGYGKT----ETRGYG   L   ! +------------2h7g_X    
                           --3 
  --NC----KA----------   L   !         +---1a31_A    
                             +---------1 
  --NC----KTDA----TT--   L             +---2b9s_A

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updated Tue Dec 19 07:49:16 2023