SMTL ID : 7o45.1 (1 other biounit)

Crystal structure of ADD domain of the human DNMT3B methyltransferase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-trimer

Ligands

9 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.6: 4 residues within 4Å: Chain B: C.27, C.30, C.47, C.50 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.27, B:C.30, B:C.47, B:C.50 ZN.7: 4 residues within 4Å: Chain B: C.70, C.73, C.92, C.95 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.70, B:C.73, B:C.92, B:C.95 ZN.8: 4 residues within 4Å: Chain B: C.82, C.87, C.116, C.119 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.82, B:C.87, B:C.116, B:C.119 ZN.9: 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.10: 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.11: 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

3 x BR: BROMIDE ION(Non-functional Binders)(Non-covalent)

BR.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP BR.5: 5 residues within 4Å: Chain A: R.32, P.35, V.36, C.47, Q.48 Ligand excluded by PLIP BR.12: 4 residues within 4Å: Chain C: D.6, Q.7, R.32, K.33 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boyko, K. et al., Structure of the DNMT3B ADD domain suggests the absence of a DNMT3A-like autoinhibitory mechanism. Biochem.Biophys.Res.Commun. (2022)

Release Date

2022-04-13

Peptides

Isoform 6 of DNA (cytosine-5)-methyltransferase 3B: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Isoform 6 of DNA (cytosine-5)-methyltransferase 3B

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