5zen_A : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF HUMAN TOPOISOMERASE II BETA IN COMPLEX WITH DNA: A NEW QUATERNARY CONFORMATION SHOWING OPENING OF THE PROTEIN-LINKED DNA-GATE (DNA topoisomerase 2-beta)
reference	Chen et al. 'Nat 9 3085 2018
source	Homo sapiens
experiment	X-ray (resolution=2.75, R-factor=0.224)
structural superfamily	Type II DNA topoisomerase;
sequence family	DNA gyrase/topoisomerase IV, subunit A;
redundant complexes	5zqf_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5zen_A interface=54,309,402,407, kgipklddandaggkhslectliltegdsakslavsglgvigrdrygvfplrgKilnvreashkqimenaeinniikivglqykksyddaeslktlrygkimimtdqdqdgshikgllinfihhnwpsllkhgfleefitpivkalsfysipefdewkkikyykglgtstakeakeyfadmerhrilfryagpeddaaitlafskkkiddrkewltnfmedrrqrrlhglpeqflykhltyndfinkelilfsnsdnersipslvdgfkpgqrkvlftcfkrndkrevkvaqlagsvaemsayhhgeqAlmmtivnlaqnfvgsnninllqpigqfgtrlhggkdaaspryiftmlstlarllfpavddnllkflyddnqrvepewyipiipmvlingaegIgtgwAcklpnydareivnnvrrmldgldphpmlpnyknfkgtiqelgqnqyavsgeifvvdrntveitelpvrtwtqvykeqvlepmlngtdktpalisdykeyhtdttvkfvvkmteeklaqaeaaglhkvfklqttltcnsmvlfdhmgclkkyetvqdilkeffdlrlsyyglrkewlvgmlgaestklnnqarfilekiqgkitienrskkdliqmlvqrgyesdpvkawkeaqegpdfnyilnmslwsltkekveelikqrdakgrevndlkrkspsdlwkedlaafveeldkvesqered
interface signature	KAIA

Estimated binding specificities ?

readout + contact

# IC=3.101 IC/col=0.620 n_of_columns=5

specificity:

A |  13  13  24   0   0
C |  16  54  24  96   0
G |  54  16  24   0  96
T |  13  13  24   0   0

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Dendrogram of similar interfaces ?

matrix format

  
  RAKG----------QAAG------IGAG----------------   L                            +------5zen_A    
                                                                          +---2 
  --KA------------SA--RG--IG------------------                            !   +------2xcr_U    
                                                         +----------------4 
  ----RC----------ST------IA------------------           !                !        +-3ksb_B    
                                                       +-6                +--------1 
  ------------------------------------LAECDAKG         ! !                         +-6n1p_A    
                                                       ! ! 
  ------QA--------------NG--------------------       +-7 +---------------------------7k63_U    
                                                     ! ! 
  ----------RC----------SG--------------------       ! !        +-------------------7cow_T    
                                                     ! +--------5 
  --------RC----------------------------------     --8          !          +--------6l9z_S    
                                                     !          +----------3 
  ----------DTRGRCTTKT------------------------   L   !                     +--------2o9l_A    
                                                     ! 
  ----------------------------NCATSTRA--------       +-----------------------------1a02_J

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updated Sun Aug 3 10:45:50 2025