interface graph thumbnail
legend  pdf

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.


Related DNA sequences reported in the literature ?


structure nameSOLUTION STRUCTURE OF THE CDC13 DNA-BINDING DOMAIN COMPLEXED WITH A SINGLE-STRANDED TELOMERIC DNA 11-MER
(CELL DIVISION CONTROL PROTEIN 13)
sourceSACCHAROMYCES CEREVISIAE
experimentNMR
structural superfamilyNucleic acid-binding proteins;
sequence familyCDC13, ssDNA binding;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
sitesourcematches (E-value)
term: CDC13
GTGTGGGTGTGPubMed1s40_A(3.22e-12)

Dendrogram of similar interfaces ?

matrix format
  
  ----EGTGYGSGDGKGATFTSGVGNGYTLGYG------YG------KG----YT------------RGDGNG------KT--YG----NGAG--RT----------   L                               +-1s40_A    
                                                                                                                          +--------------------1 
  KTFT----YT--------------NTYT--YADGFGSGFGRGET--HA--LTYT--NTRTITMTDT--NG----RG--KTQGFG--KANT--VTLT--EALATGRT   L       +--2                    +-6lbr_A    
                                                                                                                       !  ! 
  --------YT------------------------------------------YGDG--------------------------------------RT----------   L     +-3  +----------------------3kjp_A    
                                                                                                                     ! ! 
  --------QT----------------------------------------RT------------------------LTTTKTFTQT------ST--HT--------       +-4 +-------------------------4gnx_B    
                                                                                                                   ! ! 
  --------------------------------------------QC--HC----------------------------TGRAYC----------------------   L --5 +--------------------------1qzh_E    
                                                                                                                   ! 
  ----------------------------------------------WT--TTFT------------------MT--RTRT------RTRT----------------   L   +---------------------------6i52_C    
                                                                                                                 

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updated Fri Sep 13 15:59:35 2024