3vk8_B : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF DNA-GLYCOSYLASE BOUND TO DNA CONTAINING THYMINE GLYCOL (Probable formamidopyrimidine-DNA glycosylase)
reference	Wallace et al.
source	Acanthamoeba polyphaga mimivirus
experiment	X-ray (resolution=2.00, R-factor=0.201)
structural superfamily	N-terminal domain of MutM-like DNA repair proteins;S13-like H2TH domain;
sequence family	FormamidopyrimidineDNA glycosylase N; FormamidopyrimidineDNA glycosylase H2;
redundant complexes	3a46_A 3vk7_B 4nrw_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3vk8_B interface=83,112,113,115,271,273,274,276, pqgpevaltadilekyfkgktleyidfisgrysksepegyddfianlplkvsnvdtkgkflwfelfdpndksnkwyiwntfgLtgmwslfeakytravlsfdnelmayfsdMRnFgtfkfsnsekelkrklnelgpdflknddidiskikkykqpivallmdqkkigsglgnylvaeilyrakidphklgsnltdqeienlwywikyetklaydsnhigymvnlenesskigrknyhpnihptekefdflvyrkkkdpngnkviadkiigSgKNkRttywapaiqkle
interface signature	LMRFSKNR

Estimated binding specificities ?

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# IC=5.766 IC/col=0.824 n_of_columns=7

specificity:

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

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Dendrogram of similar interfaces ?

matrix format

  
  --LGMTRCFCSAKANGRT   L          +-------3vk8_B    
                           +------3 
  RTMT--RCFA------RT       !      !   +---6fl1_A    
                           !      +---1 
  --MG--RCFC------RT   L --4          +---6tc9_A    
                           ! 
  --MGITRCFG--------   L   !       +-----5itu_A    
                           +-------2 
  --MGITRCFG--------               +-----6lwd_G

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updated Sun Aug 3 07:37:44 2025