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 nameCRYSTAL STRUCTURE OF POT1 (PROTECTION OF TELOMERE)- SSDNA COMPLEX
(Protection of telomeres protein 1)
referencePodell et al. Nature 426 198 2003
sourceSchizosaccharomyces pombe
experimentX-ray (resolution=2.40, R-factor=0.249)
structural superfamilyNucleic acid-binding proteins;
sequence familyTelomerebinding protein alpha subunit, cen;
multimeric complexes1qzh_BF 1qzh_DE
links to other resourcesNAKB PDBSum PDIdb DNAproDB
  
  --------------------STTT--DT--------QC--HCFAKT------------TGRAYC--QCLG--KGDGQG   L                                +1qzh_E    
                                                                                                            +-------1 
  --------------------STTT--DT--------QC--HCFTKT------------TGRCYC--QCLG--KGDG--   L          +-------------2       +7cuh_A    
                                                                                              !             ! 
  --NG----------------STTT--DT--------QC--HCFA--------------TGRGYCRCQCLGSGKGDG--           +--4             +-------6bwy_A    
                                                                                           !  ! 
  ----------DGTGFGYGKT--------YTKG--------------FG--IG--HG----RGYG--QG----------   L     +-5  +---------------------2i0q_A    
                                                                                         ! ! 
  --------KGFG--------ST--TTDT--TG----TG--LAFA----------------QGYG--QGIA--------   L     ! !    +-------------------3kjp_A    
                                                                                       +-6 +----3 
  EGTGYG--------------------------------KG------------------KT--YG--------------   L   ! !      +-------------------1s40_A    
                                                                                     --7 ! 
  ----KTNT----------------------TTATTTWT--RT----RTIT--YT--ET--------------------   L   ! +-------------------------6irq_A    
                                                                                       ! 
  --------------KC--------------------------------------------------------------       +---------------------------3rn5_C    
                                                                                     

home
updated Fri Sep 13 15:57:09 2024