SMTL ID : 4u7t.1

Crystal structure of DNMT3A-DNMT3L in complex with histone H3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-2-2-2-mer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.27, C.30, C.47, C.50 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.27, A:C.30, A:C.47, A:C.50 ZN.2: 4 residues within 4Å: Chain A: C.70, C.73, C.92, C.95 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.70, A:C.73, A:C.92, A:C.95 ZN.3: 4 residues within 4Å: Chain A: C.82, C.87, C.116, C.119 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.82, A:C.87, A:C.116, A:C.119 ZN.5: 4 residues within 4Å: Chain C: C.27, C.30, C.47, C.50 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.27, C:C.30, C:C.47, C:C.50 ZN.6: 4 residues within 4Å: Chain C: C.70, C.73, C.92, C.95 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.70, C:C.73, C:C.92, C:C.95 ZN.7: 4 residues within 4Å: Chain C: C.82, C.87, C.116, C.119 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.82, C:C.87, C:C.116, C:C.119

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

SAH.4: 18 residues within 4Å: Chain A: F.173, D.174, G.175, I.176, T.178, S.196, E.197, V.198, C.199, D.219, V.220, R.221, G.240, P.242, L.263, R.424, S.425, W.426 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:I.176, A:T.178, A:D.219, A:V.220, A:R.221, A:R.424, A:W.426, A:W.426 Water bridges: A:T.178, A:T.178 pi-Stacking: A:F.173 SAH.8: 17 residues within 4Å: Chain C: F.173, D.174, G.175, I.176, T.178, S.196, E.197, V.198, C.199, D.219, V.220, R.221, G.240, L.263, R.424, S.425, W.426 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:F.173, C:I.176, C:T.178, C:V.198, C:D.219, C:V.220, C:R.221, C:W.426 pi-Stacking: C:F.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, X. et al., Structural insight into autoinhibition and histone H3-induced activation of DNMT3A. Nature (2015)

Release Date

2014-11-12

Peptides

DNA (cytosine-5)-methyltransferase 3A: AC
DNA (cytosine-5)-methyltransferase 3-like: BD
peptide from Histone H3.3: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

E
F

F
G

DNA (cytosine-5)-methyltransferase 3A

DNA (cytosine-5)-methyltransferase 3-like

peptide from Histone H3.3

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