SMTL ID : 7rw5.1 (1 other biounit)

Crystal structure of human methionine adenosyltransferase 2A (MAT2A) in complex with SAM and allosteric inhibitor Compound 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

homo-dimer

Ligands

1 x SAM: S-ADENOSYLMETHIONINE(Covalent)

SAM.1: 20 residues within 4Å: Chain A: A.56, E.71, Q.114, D.117, I.118, G.134, D.135, K.290, I.323 Chain B: H.30, P.31, D.180, K.182, S.207, S.248, R.250, F.251, I.253, G.258, D.259 15 PLIP interactions: 10 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:D.180, B:K.182, B:S.248, B:R.250, B:D.259, A:Q.114 Water bridges: B:S.248, B:D.259, A:K.290, A:K.290 Salt bridges: B:D.259, A:D.135, A:K.290 pi-Stacking: B:F.251, B:F.251

1 x 7U2: (3'R)-N-(cyclopropylmethyl)-1'-[(2-fluorophenyl)methyl]-4-methyl-5H,7H-spiro[pyrano[4,3-d]pyrimidine-8,3'-pyrrolidin]-2-amine(Non-covalent)

7U2.2: 15 residues within 4Å: Chain A: F.140, G.276, A.277, L.316, S.332, I.333, F.334 Chain B: F.19, L.20, F.21, Q.191, G.274, W.275, G.276, R.314 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.140, A:A.277, A:F.334, A:F.334, B:F.19, B:W.275 Hydrogen bonds: A:I.333, B:R.314 pi-Stacking: B:F.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, M. et al., Leveraging Structure-Based Drug Design to Identify Next-Generation MAT2A Inhibitors, Including Brain-Penetrant and Peripherally Efficacious Leads. J.Med.Chem. (2022)

Release Date

2022-03-23

Peptides

S-adenosylmethionine synthase isoform type-2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

S-adenosylmethionine synthase isoform type-2

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