SMTL ID : 5und.2 (1 other biounit)

Crystal Structure of CTCF(ZnF 4-10) With 28-mer DNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

monomer

Ligands

5 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.8, M.10, C.11, H.24, H.28 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.8, A:C.11, A:H.24, A:H.28 ZN.2: 5 residues within 4Å: Chain A: C.36, L.38, C.39, H.52, H.56 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.36, A:C.39, A:H.52, A:H.56 ZN.3: 4 residues within 4Å: Chain A: C.64, C.67, H.80, H.85 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.64, A:C.67, A:H.80, A:H.85 ZN.4: 4 residues within 4Å: Chain A: C.94, C.97, H.110, H.115 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.94, A:C.97, A:H.110, A:H.115 ZN.5: 4 residues within 4Å: Chain A: C.124, C.127, H.140, H.144 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.124, A:C.127, A:H.140, A:H.144

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 4 residues within 4Å: Chain A: C.67, H.80, K.84, H.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.84 EDO.8: 3 residues within 4Å: Chain B: T.11 Chain C: G.19, C.20 No protein-ligand interaction detected (PLIP) EDO.9: 3 residues within 4Å: Chain B: G.13 Chain C: G.14, G.15 No protein-ligand interaction detected (PLIP) EDO.10: 1 residues within 4Å: Chain C: G.14 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 3 residues within 4Å: Chain A: H.96, H.115, E.133 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hashimoto, H. et al., Structural Basis for the Versatile and Methylation-Dependent Binding of CTCF to DNA. Mol. Cell (2017)

Release Date

2017-05-24

Peptides

Transcriptional repressor CTCF: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Transcriptional repressor CTCF

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