5k5i_A : 3D-footprint complex

structure name	HOMO SAPIENS CCCTC-BINDING FACTOR (CTCF) ZNF5-8 AND DNA COMPLEX STRUCTURE IN SPACE GROUP P65 (Transcriptional repressor CTCF)
reference	Hashimoto et al. 'Mol. 66 711 2017
source	Homo sapiens
experiment	X-ray (resolution=2.19, R-factor=0.220)
structural superfamily	beta-beta-alpha zinc fingers;
sequence family	Zinc finger, C2H2 type;
redundant complexes	5k5h_A 5k5j_A 5yeh_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5k5i_A interface=14,17,20,42,45,74,75, spfqcslcsyasrDtyKlkRhmrthsgekpyecyicharftQsgTmkmhilqkhtenvakfhcphcdtviarkSDlgvhlrkqhsyieqgkkcrycdavfheryaliqhqksh
interface signature	DKRQTSD

Estimated binding specificities ?

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# IC=8.900 IC/col=0.989 n_of_columns=9

specificity:

A |   0   0   0   0   0   8   8   0   8
C |  96  80  96   0   0  56   8   0   8
G |   0   0   0   0  96  16   8  96  72
T |   0  16   0  96   0  16  72   0   8

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: CTCF
CCCTC	PubMed	5k5i_A(2.91e-03), 5k5j_A(2.93e-03)
CCCTCC	PubMed	5k5i_A(3.53e-04), 5k5j_A(3.33e-04)

Dendrogram of similar interfaces ?

matrix format

  
  ----TCYCKARGTCQAST--TC--------RCSCDCVT--   L                   +--------5yef_B    
                                                        +--------1 
  --EC--SGKGRG--DG--YCKG--RG----QA--TC----   L      +---3        +--------5k5h_A    
                                                    !   ! 
  --------------QA----TC----RG--RGYCRT----   L   +--4   +-----------------7txc_E    
                                                 !  ! 
  --NT--STNAVT--QTSTSGKG--RG--------------   L --5  +---------------------6u9q_A    
                                                 ! 
  NGKT--WTKG--------HTHG--RG--TGTTACNAKGRG   L   !           +------------1tf3_A    
                                                 +-----------2 
  RGST--YGYC----QC--TGSTRGYT--------------                   +------------4is1_C

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updated Tue Dec 19 10:48:23 2023