SMTL ID : 6b3b.1

AprA Methyltransferase 1 - GNAT in complex with Mn2+ , SAM, and Malonate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 16 residues within 4Å: Chain A: H.272, F.276, M.302, G.303, G.305, D.338, Y.339, N.340, A.343, G.361, D.362, I.363, S.388, F.389, L.390, P.395 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.303, A:G.305, A:Y.339, A:D.362, A:I.363, A:S.388 Salt bridges: A:H.272 pi-Stacking: A:Y.339, A:Y.339

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

MN.2: 4 residues within 4Å: Chain A: H.392, H.479, Q.484 Ligands: MLI.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.392, A:H.479, H2O.2

1 x MLI: MALONATE ION(Non-functional Binders)

MLI.3: 11 residues within 4Å: Chain A: T.225, Y.229, N.264, S.268, H.272, H.392, F.475, H.479, Q.484 Ligands: MN.2, GOL.4 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.264, A:N.264, A:Q.484 Water bridges: A:Y.229, A:R.261 Salt bridges: A:H.272, A:H.392, A:H.479, A:H.479

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: H.272, F.275, F.475, R.519, I.520 Ligands: MLI.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.272, A:R.519, A:R.519

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Skiba, M.A. et al., A Mononuclear Iron-Dependent Methyltransferase Catalyzes Initial Steps in Assembly of the Apratoxin A Polyketide Starter Unit. ACS Chem. Biol. (2017)

Release Date

2017-11-15

Peptides

AprA Methyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

AprA Methyltransferase 1

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