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legend  pdf

structure nameCRYSTAL STRUCTURE OF CTCF(ZNF 4-10) WITH 28-MER DNA
(Transcriptional repressor CTCF)
referenceHorton et al. 'Mol. 66 711 2017
sourceHomo sapiens
experimentX-ray (resolution=2.55, R-factor=0.212)
structural superfamilybeta-beta-alpha zinc fingers;
sequence familyZinc finger, C2H2 type;
multimeric complexes5und_AB
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureEKRKRQTSDV

Estimated binding specificities ?

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# IC=14.338 IC/col=1.103 n_of_columns=13 specificity:   
A |   8   0   0   0   0   0   0   0   9  11   0   0   8
C |  69   0  96  96  96  96  96   0   0  69   0   0  19
G |   8  96   0   0   0   0   0   0  87   8   0  96  61
T |  11   0   0   0   0   0   0  96   0   8  96   0   8
scan!

Dendrogram of similar interfaces ?

matrix format
  
  --ECSCKGRG--DCTCYCKGRG----QA----TC------RC--SCDC--VT   L                               +-----5und_A    
                                                                                       +-4 
  --ECSCKGRG----TCYCKARG--TCQAST--TC------RC--SCDC--VT   L                           +-5 +-----5yef_B    
                                                                                     ! ! 
  ------------DC--YCKGRG----QA----TC------RC--SCDC--VT   L               +-----------6 +-------5k5i_A    
                                                                         !           ! 
  --ECSGKGRG--DG--YCKGRG----QA----TC------RA--SCDC--VT   L               !           +--------5k5h_A    
                                                                      +--9 
  FT--KAYT----WT--WTSTET----FTVASGDCSARG--------------   L            !  !                +---6jnm_A    
                                                                      !  !   +------------3 
  NGKTWTKG--------HTHGRG--TGTT--ACNA--KGRG------------   L            !  +---7            +---1tf3_A    
                                                                   +-10      ! 
  ------------------YG------WT--WTST--ET--FTVASGDCSART   L         !  !      +----------------6a57_A    
                                                                   !  !  
  ----------RGST--YGYC------QC--TGSTRAYT--------------   L         !  !                       +3uk3_C    
                                                                +-11  +-----------------------1 
  ------------NT--STNAVT----QTSTSGKG--RG--------------   L      !  !                          +6u9q_A    
                                                                !  !  
  --TTTCLA----TTSC--ECRGYG--EC--SCKG--RG--DG--YCKG--RG   L      !  !                     +--5t0u_A    
                                                             +-12  !      +--------------2 
  ----SGHGRGRGDC--SCHG------DC--SANA------WC--SCVG--RG   L   !  !  +------8              +--5v3g_A    
                                                             !  !         ! 
  ------------DC--SCQGKT--TTAT--SCSC------DC--SGATRARG   L -13  !         +-----------------6ml4_A    
                                                             !  !  
  ----TCSGRG--LT--ETYC------NTYGQG--------------------   L   !  +---------------------------6dfb_A    
                                                             !  
  ----------------------------------------RG--SGDC----   L   +----------------------------5k5l_F    
                                                           

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updated Tue Dec 19 11:25:29 2023