SMTL ID : 4m9e.1

Structure of Klf4 zinc finger DNA binding domain in complex with methylated DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: T.53, Y.56, R.57, T.60, H.62 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.57, A:T.60, A:T.60, A:H.62 Water bridges: A:T.53

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 2 residues within 4Å: Chain A: R.57 Chain C: A.4 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.57 Salt bridges: A:R.57

3 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: C.67, C.70, H.83, H.87 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.67, A:C.70, A:H.83, A:H.87 ZN.4: 5 residues within 4Å: Chain A: C.37, W.39, C.42, H.55, H.59 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.37, A:C.42, A:H.55, A:H.59 ZN.5: 4 residues within 4Å: Chain A: C.7, C.12, H.25, H.29 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.7, A:C.12, A:H.25, A:H.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Structural basis for Klf4 recognition of methylated DNA. Nucleic Acids Res. (2014)

Release Date

2014-02-12

Peptides

Krueppel-like factor 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Krueppel-like factor 4