interface graph thumbnail
legend  pdf

3D-footprint cannot reliably estimate the specificity of histones, as they display few contacts over long stretches of DNA.


Related DNA sequences reported in the literature ?


structure nameCCAAT-BINDING COMPLEX FROM ASPERGILLUS NIDULANS WITH DNA
(TRANSCRIPTION FACTOR HAPC EUROFUNG)
referenceHortschansky et al. Structure 20 1757 2012
sourceASPERGILLUS NIDULANS
experimentX-ray (resolution=1.80, R-factor=0.158)
structural superfamilyHistone-fold;
sequence familyHistonelike transcription factor CBF/;
multimeric complexes4g92_ABC 6y35_ABC 6y36_ABC 6y37_ABC 6y39_BCEFHI 7aw7_ABCDE 7aw9_ABCDE
redundant complexes6y37_B 6y35 6y36 6y39 7aw7 7aw9
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
sitesourcematches (E-value)
term: CCAAT
CCAATPubMed4g92_ABC(1.40e-05), 6y35_ABC(3.75e-04), 6y36_ABC(1.26e-07), ... (total=4)
ATTGGPubMed4g92_ABC(1.40e-05), 6y35_ABC(3.75e-04), 6y36_ABC(1.26e-07), ... (total=4)
CCAACPubMed4g92_ABC(7.23e-03), 6y36_ABC(3.65e-04), 6y37_ABC(7.13e-03)
TGCCAATCAPubMed4g92_ABC(7.98e-07), 6y35_ABC(1.10e-04), 6y36_ABC(1.25e-08), ... (total=4)
CCAATCGCATPubMed4g92_ABC(9.64e-04), 6y35_ABC(1.84e-04), 6y36_ABC(2.66e-08), ... (total=4)
GCCAATPubMed4g92_ABC(1.63e-04), 6y35_ABC(1.18e-03), 6y36_ABC(9.19e-07), ... (total=4)
CAATTPubMed4g92_ABC(7.13e-03), 6y35_ABC(1.40e-04), 6y36_ABC(3.68e-04), ... (total=4)
GCCAAPubMed4g92_ABC(7.23e-03), 6y36_ABC(3.65e-04), 6y37_ABC(7.13e-03)
GCAATGAPubMed4g92_ABC(9.50e-03), 6y35_ABC(3.53e-03), 6y36_ABC(3.47e-03), ... (total=4)
CTGATTGGCPubMed4g92_ABC(7.98e-07), 6y35_ABC(1.10e-04), 6y36_ABC(1.25e-08), ... (total=4)

Dendrogram of similar interfaces ?

matrix format
  
  ------RT       +-----------------------------7lya_E    
                 ! 
  ------RT     --7  +--------------------------7zs9_e    
                 !  ! 
  ------RT       +--6 +-------------------------7wlr_E    
                    ! ! 
  --IT--RA          +-5                  +------7k78_E    
                      !     +------------2 
  RAETRT--            !     !            +------4ne1_p    
                      +-----4 
  ------RA                  !                   +6t7a_C    
                            !    +--------------1 
  ------RT                  +----3              +7lyb_G    
                                 ! 
  ------RT                       +--------------1u35_G    
               

home
updated Tue Dec 19 08:49:45 2023