SMTL ID : 5nvo.1 (1 other biounit)

Human DNMT3B PWWP domain in complex with choline

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x CHT: CHOLINE ION(Non-covalent)

CHT.1: 5 residues within 4Å: Chain A: F.31, W.34, W.58, D.61, K.63 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.61 Salt bridges: A:D.61 pi-Cation interactions: A:F.31, A:W.34, A:W.34, A:W.58, A:W.58

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 1 residues within 4Å: Chain A: R.105 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.105 SO4.3: 3 residues within 4Å: Chain A: K.103, R.107, P.145 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.103, A:R.107 SO4.4: 3 residues within 4Å: Chain A: K.46, R.47 Ligands: SO4.5 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.46, A:R.47 SO4.5: 3 residues within 4Å: Chain A: K.46, R.47 Ligands: SO4.4 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.46, A:R.47 SO4.6: 2 residues within 4Å: Chain A: K.29, K.71 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.29 Salt bridges: A:K.71 SO4.7: 4 residues within 4Å: Chain A: K.27, K.29, G.30, F.31 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.30, A:F.31 Salt bridges: A:K.27, A:K.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rondelet, G. et al., Targeting PWWP domain of DNA methyltransferase 3B for epigenetic cancer therapy: Identification and structural characterization of new potential protein-protein interaction inhibitors. To be published

Release Date

2018-05-30

Peptides

DNA (cytosine-5)-methyltransferase 3B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA (cytosine-5)-methyltransferase 3B

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