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structure nameSTRUCTURE OF SCR/EXD COMPLEX BOUND TO A DNA SEQUENCE DERIVED FROM THE FKH GENE
(HOMEOTIC PROTEIN SEX COMBS REDUCED)
referenceAggarwal et al. 'Cell(Cambridge,Mass.)' 131 530 2007
sourceDROSOPHILA MELANOGASTER
experimentX-ray (resolution=2.60, R-factor=0.233)
structural superfamilyHomeodomain-like;
sequence familyHomeobox domain;
multimeric complexes2r5y_AB 2r5z_AB
redundant complexes2r5y
reference complex2r5y_A
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureHRRIQNMK

Estimated binding specificities ?

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# IC=7.179 IC/col=0.897 n_of_columns=8 specificity:   
A |   4   4  16  68   0   0  83  96
C |  83  83  12   8   0   0   4   0
G |   5   5  54  16   0   0   4   0
T |   4   4  14   4  96  96   5   0
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: EXD
TGATTAATPubMed2r5z_A(1.38e-03), 2r5y_AB(1.75e-07), 2r5z_AB(2.05e-08)
ATCAATCAAPubMed2r5y_AB(1.57e-06), 2r5z_AB(7.87e-04)
TTGATTGATPubMed2r5y_AB(1.57e-06), 2r5z_AB(7.87e-04)
TGATNNATPubMed2r5y_AB(1.78e-05), 2r5z_AB(4.40e-03)
TGATTNATGGPubMed2r5y_AB(5.83e-14), 2r5z_AB(1.66e-05)

Dendrogram of similar interfaces ?

matrix format
  
  ----RT------------------------VAQTNA------   L                                     +5hod_A    
                                                                                  +--1 
  --KGRT------------------------IAQCNAYA--RT   L                          +-------3  +1nk2_P    
                                                                          !       ! 
  ----RT------------------------NT--NAIARG--   L                  +-------4       +--1b72_B    
                                                                  !       ! 
  RC--RT------------------------ITQCNAACRG--   L                  !       !         +6a8r_A    
                                                                +-6       +---------2 
  --RCRT------------------------NT--NAITRG--                    ! !                 +5zjt_B    
                                                             +--7 ! 
  ----RA------------------------YAQTNAAARG--   L             !  ! +------------------6wig_A    
                                                             !  ! 
  ----------------------------RCVACTNAQA----   L             !  +--------------------7xrc_C    
                                                         +---9 
  --RTRT------------------------IAKGNA------   L         !   !        +---------------6m3d_C    
                                                         !   ! +------5 
  ----RA----------------------RCVTCTNAQTRC--   L      +-10   +-8      +---------------1au7_A    
                                                      !  !     ! 
  ----------------------------RTVAITNAMCRG--   L      !  !     +----------------------1yrn_A    
                                                   +-11  !  
  ------NGRGTG------LG----LCRG--------------       !  !  +---------------------------7kz0_A    
                                                 -12  !  
  RT--RT------------------------VAQTNA------   L   !  +-----------------------------1fjl_B    
                                                   !  
  --------YT--RTTGRG--STATEA--ST------------   L   +-----------------------------6xg8_A    
                                                 

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updated Mon Dec 18 07:13:23 2023