SMTL ID : 4da4.2 (1 other biounit)

Structure of mouse DNMT1 (731-1602) bound to hemimethylated CpG DNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 20 residues within 4Å: Chain A: F.419, S.420, G.421, C.422, G.423, G.424, L.425, E.442, M.443, W.444, E.463, D.464, C.465, G.497, K.518, L.521, N.851, A.852, V.853 Chain C: C.6 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:F.419, A:S.420, A:C.422, A:G.423, A:G.424, A:L.425, A:M.443, A:D.464, A:C.465, A:G.497, A:N.851, A:V.853 Water bridges: A:S.426 pi-Stacking: A:F.419

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.750, C.752, C.758, H.775 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.750, A:C.752, A:C.758, A:H.775 ZN.3: 4 residues within 4Å: Chain A: H.67, C.94, C.168, C.171 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.67, A:C.94, A:C.168, A:C.171

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.4: 5 residues within 4Å: Chain A: R.837, F.838, F.839, G.840, R.845 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:F.839 Hydrogen bonds: A:F.838, A:G.840, A:R.845, A:R.845 Water bridges: A:S.658, A:S.658, A:D.685, A:R.837, A:R.837, A:R.837 Salt bridges: A:R.837, A:R.845, A:R.845

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, J. et al., Structure-Based Mechanistic Insights into DNMT1-Mediated Maintenance DNA Methylation. Science (2012)

Release Date

2012-02-22

Peptides

DNA (cytosine-5)-methyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

DNA (cytosine-5)-methyltransferase 1

Related Entries With Identical Sequence