SMTL ID : 5vmv.1

Kaiso (ZBTB33) zinc finger DNA binding domain in complex with its double CpG-methylated DNA consensus binding site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.26, C.29, H.42, H.46 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.26, A:C.29, A:H.42, A:H.46 ZN.2: 4 residues within 4Å: Chain A: C.54, C.57, H.70, H.74 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.54, A:C.57, A:H.70, A:H.74, H2O.1 ZN.3: 4 residues within 4Å: Chain A: C.82, C.85, H.98, H.103 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.82, A:C.85, A:H.98, A:H.103

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: R.78, R.120 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nikolova, E.N. et al., CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso. Biochemistry (2018)

Release Date

2018-04-04

Peptides

Transcriptional regulator Kaiso: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Transcriptional regulator Kaiso

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