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
  
  ------------------RA----             +-----------------------------6g0l_D    
                                       !  
  --------------IT--------             !               +------------------3wkj_D    
                                       !               !  
  ----------RG------------             !               !  +-----------------3x1t_H    
                                       !               !  !  
  ----------RT------------             !        +-----18  !              +-----6nj9_H    
                                       !        !      !  !     +--------8 
  ----------------RA----RA             !        !      !  !     !        +-----6a5l_g    
                                       !        !      !  !     !  
  --------------------KG--             !        !      !  !     !              +7nkx_f    
                                       !        !      +-17     !    +---------6 
  ----------------RG------             !        !         !  +-13    !         +5x0y_G    
                                       !        !         !  !  !  +-9 
  ----------------RC------             !        !         !  !  !  ! !            +7on1_c    
                                       !        !         !  !  !  ! !          +-1 
  ----------------RA------             !        !         !  !  !  ! +----------4 +1zla_C    
                                       !        !         !  !  +-10            ! 
  ----------------RG------             !        !         +-15     !            +8ox0_C    
                                       !        !            !     !  
  ----------------RG------          +-24        !            !     !           +3w99_F    
                                    !  !        !            !     +-----------2 
  ----------------RG------          !  !        !            !                 +8jla_C    
                                    !  !        !            !  
  ----------RG------------          !  !     +-21            +----------------7tn2_D    
                                    !  !     !  !  
  ----------------RC------          !  !     !  !                             +--7xyf_B    
                                    !  !     !  !                   +---------7 
  ----------------RT------          !  !     !  !                   !         +--7kbd_C    
                                    !  !     !  !                +-11  
  ------------LA--RG------          !  !     !  !                !  !            +7unc_a    
                                    !  !     !  !                !  +------------3 
  ----------------RT------          !  !     !  !             +-12               +8grq_A    
                                    !  !     !  !             !  !  
  ----------------RG------          !  !     !  !             !  !             +7ccr_A    
                                 +-25  !  +-22  !          +-14  +-------------5 
  ----------------RT------       !  !  !  !  !  !          !  !                +8hr1_E    
                                 !  !  !  !  !  !     +---16  !  
  ----------------RC------       !  !  !  !  !  !     !    !  +---------------4xzq_E    
                                 !  !  !  !  !  !  +-19    !  
  ----------------RG------       !  !  !  !  !  !  !  !    +-----------------6iy2_A    
                                 !  !  +-23  !  +-20  !  
  ----------------RC------       !  !     !  !     !  +----------------------3kwq_E    
                               -26  !     !  !     !  
  ----------------RT------       !  !     !  !     +-----------------------7zs9_e    
                                 !  !     !  !  
  ----------------RT------       !  !     !  +---------------------------5z23_C    
                                 !  !     !  
  ----------------RG------       !  !     +----------------------------7y7i_E    
                                 !  !  
  NTATATSTRG--------------   L   !  +-----------------------------1dh3_C    
                                 !  
  ------------------RG----       +-----------------------------7n8n_A    
                               

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updated Mon Aug 4 00:44:00 2025