3D-footprint cannot reliably estimate the specificity of 'Nucleic acid-binding proteins', as they bind to single-stranded DNA and thus accumulate more base contacts.


Dendrogram of similar interfaces ?

matrix format
structure nameSTRUCTURE AND CONFORMATIONAL CHANGE OF A REPLICATION PROTEIN A HETEROTRIMER BOUND TO SSDNA
(PUTATIVE UNCHARACTERIZED PROTEIN)
referencePavletich et al. 'Genes 26 2337 2012
sourceUSTILAGO MAYDIS
experimentX-ray (resolution=3.10, R-factor=0.244)
structural superfamilyNucleic acid-binding proteins;
sequence familyOBfold nucleic acid binding domain;
multimeric complexes4gnx_AZ 4gnx_BY 4gnx_CX 4gop_AYZ
reference complex4gnx_B
links to other resourcesNAKB PDBSum PDIdb DNAproDB 
  
  QT----------------------RT--WT----------LT--TT--KT--FTQT----ST----HT                       +-----------4gop_B    
                                                                                      +------1 
  DGDG--------DG--YGTG------LG--LG----PGRGRGSG----------------YT------   L            !      +-----------2i0q_A    
                                                                                   +--4 
  YG--------------------------------------EG----------------------NG--             !  ! +-----------------3u58_C    
                                                                                   !  +-3 
  YT--------------------------YG--------------------------------RT----   L   +-----5    ! +---------------3kjp_A    
                                                                             !     !    +-2 
  --------------DT------QCHC--FA--KT----------TG--RA--YC--------------       !     !      +---------------1qzh_E    
                                                                           --6     ! 
  ----KG--WGYT--------YC--RT--IG----------------KG--DTHTLTYAEGIG--HG--   L   !     +---------------------4hja_A    
                                                                             ! 
  ----WTFTNTVTRTMT------DTFT--------FTRT----------------------ET------   L   +---------------------------4a75_C

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updated Thu Sep 12 19:24:24 2024