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structure nameHOMO SAPIENS CCCTC-BINDING FACTOR (CTCF) ZNF3-7 AND DNA COMPLEX STRUCTURE
(Transcriptional repressor CTCF)
referenceHashimoto et al. 'Mol. 66 711 2017
sourceHomo sapiens
experimentX-ray (resolution=1.74, R-factor=0.171)
structural superfamilybeta-beta-alpha zinc fingers;
sequence familyZinc finger, C2H2 type;
redundant complexes5t00_D 5yef_J 8sss_A 8sst_D
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureTERYESKRDYKRQTRSDV

Estimated binding specificities ?

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# IC=16.022 IC/col=1.144 n_of_columns=14 specificity:   
A |   8   0  17   0   0   8   0   0   0   0   0   0   0   8
C |   0  96   0  96  96  72  96  96   0   0  96   0   0  19
G |  88   0  79   0   0   8   0   0   0  96   0   0  96  52
T |   0   0   0   0   0   8   0   0  96   0   0  96   0  17
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: CTCF
CCCTCPubMed5kkq_D(1.05e-02), 5t00_D(1.00e-02)
CCCTCCPubMed5kkq_D(1.86e-03), 5t00_D(1.77e-03)

Dendrogram of similar interfaces ?

matrix format
  
  ----------EC--SGKGRGDGYCKG--RG--QA----TC--------RASCDCVT   L     +-----------------------------5k5h_A    
                                                                   ! 
  --SA--MT--VT----NARG--ETTG------YG--ST------------------         !                               +6e94_A    
                                                                   !            +------------------1 
  CTSTQTLTITST--STHTRGRG--EA--RA----TTTGEC--RG----RG--ET--   L     !        +---2                  +5v3j_F    
                                                                   !        !   ! 
  KGWTKA--------HCHGRGTAACNA--KG--------------------------   L   +-7     +--3   +------------------1tf6_A    
                                                                 ! !     !  ! 
  --------NGKT--WTKG----HTHG--RGTGTT--ACNA--KGRG----------   L   ! !   +-4  +----------------------1tf3_A    
                                                                 ! !   ! ! 
  --------RGST--YGYC--QCTGSTRGYT--------------------------       ! ! +-5 +-------------------------4is1_C    
                                                               --8 ! ! ! 
  --------------------QA--TC--RG--RG--YCRT----------------   L   ! +-6 +--------------------------7txc_E    
                                                                 !   ! 
  --------QT--AG--KGRGRGDCKG------------------------------   L   !   +---------------------------7n5w_A    
                                                                 ! 
  --------------------QGRGHT--MG--QG----LGLC----TTRG------   L   +-----------------------------5yel_A    
                                                               

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updated Fri Sep 13 19:59:00 2024