SMTL ID : 5f13.1 (2 other biounits)

Structure of Mn bound DUF89 from Saccharomyces cerevisiae

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

monomer

Ligands

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: D.255, N.256, M.290, S.292, D.293 Ligands: PO4.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.255, A:D.293, H2O.1, H2O.2

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 8 residues within 4Å: Chain A: D.255, N.256, G.384, D.385, L.386, K.424 Ligands: MN.1, PO4.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.256, A:N.256, A:D.385, A:L.386 Water bridges: A:K.424, A:K.424 Salt bridges: A:K.424 PO4.3: 6 residues within 4Å: Chain A: E.111, D.385, L.386, R.389, K.424 Ligands: PO4.2 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.389

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: H.39, R.136 Ligand excluded by PLIP

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

EDO.5: 5 residues within 4Å: Chain A: R.249, K.279, R.344, D.373, K.376 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.249, A:R.344, A:D.373

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, L. et al., A family of metal-dependent phosphatases implicated in metabolite damage-control. Nat.Chem.Biol. (2016)

Release Date

2016-03-30

Peptides

Protein-glutamate O-methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Protein-glutamate O-methyltransferase

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