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


Dendrogram of similar interfaces ?

matrix format
structure namePIC-MEDIATOR IN COMPLEX WITH +1 NUCLEOSOME (T40N) IN MH-BINDING STATE
experimentNMR
structural superfamilyHistone-fold;HRDC-like;RING/U-box;
sequence familyCDKactivating kinase assembly factor MA; RNA polymerase Rpb4; Transcription initiation factor TFIID co; Core histone H2A/H2B/H3/H4; Zinc finger, C3HC4 type RING finger;
multimeric complexes7unc_ABabcdefgh 7und_ABEZabdefgh 8gxq_ABCDEFGHPQs 8gxs_ABCDEFGHPQ
redundant complexes7unc 7und 8a3y 8bvw 8byq 8bz1 8gxs 8rbx
links to other resourcesNAKB PDBSum PDIdb DNAproDB
  
  ----------RG------------                                           +3x1t_H    
                                                          +----------3 
  ------------------RC----                                !          +7yqk_C    
                                                     +----8 
  --------------IT--------                           !    !   +------3wkj_D    
                                                     !    +---7 
  ------------------RA--RA                           !        !      +6a5l_g    
                                             +------11        +------2 
  ------------------RG----                   !       !               +8upf_G    
                                             !       !  
  --------------------KG--                   !       !               +7nkx_f    
                                             !       +---------------1 
  ------------------RA----                   !                       +7e9c_F    
                                       +----13  
  ------------------RT----             !     !                        +7kbd_C    
                                       !     !  +---------------------4 
  ----------------HGRG----             !     !  !                     +8rbx_V    
                                       !     !  !  
  ------------LA----RG----             !     +-12                       +7unc_a    
                                       !        !        +--------------5 
  ------------------RT----          +-14        !      +-9              +6px1_A    
                                    !  !        !      ! ! 
  ------------------RT----          !  !        +-----10 +--------------7zs9_e    
                                    !  !               !  
  ------------------RG----          !  !               !              +7ccr_A    
                                 +-15  !               +--------------6 
  ------------------RC----       !  !  !                              +7ux9_E    
                                 !  !  !  
  ----------RG------------     -16  !  +-----------------------------7ccr_H    
                                 !  !  
  NTATATSTRG--------------   L   !  +-----------------------------1dh3_C    
                                 !  
  ------------------RG----       +-----------------------------7y7i_E    
                               

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updated Sat Jan 10 23:51:04 2026