5vmz_A : 3D-footprint complex

structure name	KAISO (ZBTB33) E535Q MUTANT ZINC FINGER DNA BINDING DOMAIN IN COMPLEX WITH A DOUBLE CPG-METHYLATED DNA RESEMBLING THE SPECIFIC KAISO BINDING SEQUENCE (KBS) (Transcriptional regulator Kaiso)
reference	Martinez-Yamout et al. Biochemistry 57 2109 2018
source	Homo sapiens
experiment	X-ray (resolution=2.32, R-factor=0.170)
structural superfamily	beta-beta-alpha zinc fingers;
sequence family	Zinc finger, C2H2 type;
redundant complexes	6df9_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5vmz_A interface=27,28,31,55,56,81,82,83,84,115,117, ddhyelivdgrvyyicivckrsyvclTSlrRhfnihswekkypcrycekvfplaQYrtkheihhtgerryqclacgksfiNYQFmsshiksvhsqdpsgdsklyrlhpcrslqiRqYaylsd
interface signature	TSRQYNYQFRY

Estimated binding specificities ?

readout + contact

# IC=2.184 IC/col=0.273 n_of_columns=8

specificity:

A |  12  24  24  24  24   0  16  67
C |  12  24  24  24  24   0  19   9
G |  12  24  24  24  24  96  45  11
T |  60  24  24  24  24   0  16   9

scan!

Dendrogram of similar interfaces ?

matrix format

  
  --TTSGRG--QCYC--NTYGQGFT--RTYG   L        +----------5vmz_A    
                                       +----3 
  RGDCKG----------RGSTDCHGRG----   L   !    +----------8e3e_F    
                                     --4 
  --SGHG--RGDAETRGRG--DCHG------   L   !               +6vtx_A    
                                       !       +-------1 
  RG--ECRA--TGECRGRG----ET------   L   +-------2       +5wjq_D    
                                               ! 
  EC----RG--YCKGRGQA----TC------   L           +-------8sst_A

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updated Sat Jan 10 09:05:07 2026