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structure nameSTRUCTURE OF ABDB/EXD COMPLEX BOUND TO A 'BLACK14' DNA SEQUENCE
(HOMEOBOX PROTEIN ABDOMINAL-B)
referenceBaburajendran et al. 'Cell 24 2221 2018
sourceDROSOPHILA MELANOGASTER
experimentX-ray (resolution=2.40, R-factor=0.237)
structural superfamilyHomeodomain-like;
sequence familyHomeobox domain;
multimeric complexes5zjq_AB 5zjr_AB 5zjs_AB
redundant complexes5zjq_A 5zjs_A 5zjr
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRIQNM

Estimated binding specificities ?

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# IC=4.747 IC/col=0.791 n_of_columns=6 specificity:   
A |   6  78   0  78  78  78
C |   6   6   0   6   6   6
G |   6   6   0   6   6   6
T |  78   6  96   6   6   6
scan!

Dendrogram of similar interfaces ?

matrix format
  
  --------------------------ITKGNARGRA--   L   +-----------------------------1zq3_P    
                                               !  
  --RT----------------------VTKGNA--KA--   L   !                                  +2lkx_A    
                                               !                                +-2 
  --RT----------------------IAQCNAYA--RT   L   !                       +--------4 +1nk2_P    
                                               !                       !        ! 
  --RT----------------------NT--NAITRG--       !                +------7        +5zjt_B    
                                               !                !      ! 
  --RT----------------------IAKGNA------   L   !                !      +---------6m3d_C    
                                               !           +----9 
  --RT----------------------VAQTNA------   L   !           !    !                 +3lnq_A    
                                               !           !    !               +-1 
  --RA--------------------RCVTCTNAQTRC--   L   !        +-11    +---------------5 +1au7_A    
                                             -16        !  !                    ! 
  --RT----------------------NT--NAIARG--   L   !        !  !                    +1b72_B    
                                               !     +-13  !  
  --RA----------------------YAQTNAAARG--   L   !     !  !  +---------------------6wig_A    
                                               !     !  !  
  RC----RT------------------NCSTNARG----   L   !     !  +----------------------1mnm_C    
                                               !     !  
  --RT----------------------TTQCNA------   L   !     !                          +3a01_E    
                                               !  +-14                       +--3 
  --RT----------------------ITQCNAACRG--   L   !  !  !             +---------6  +6a8r_A    
                                               !  !  !             !         ! 
  ------------------------RCVACTNAQA----   L   !  !  !     +-------8         +--7xrc_C    
                                               !  !  !     !       ! 
  ------------------------RTVAITNAMCRG--   L   +-15  !  +-10       +------------1yrn_A    
                                                  !  !  !  !  
  ----NGRGTG----LG----LC----------------          !  +-12  +--------------------6vjw_A    
                                                  !     !  
  ----NGRGTG----LG----LCRG--------------          !     +----------------------7kz0_A    
                                                  !  
  --YT--RT--TGRG--STATEA--ST------------   L      +---------------------------6xg8_A    
                                             

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updated Fri Sep 13 21:12:11 2024