SMTL ID : 8oog.1

Crystal structure of human MAT2a with S-Adenosylmethionine and a fragment bound in a novel pocket

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

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

SAM.1: 10 residues within 4Å: Chain A: H.31, P.32, D.181, K.183, S.208, S.249, R.251, F.252, I.254, D.260 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.181, A:S.249, A:R.251, A:D.260, A:D.260, A:D.260 Water bridges: A:S.249 Salt bridges: A:D.260 pi-Stacking: A:F.252, A:F.252

1 x VUO: 6-oxidanyl-1,3-benzoxathiol-2-one(Non-covalent)

VUO.2: 7 residues within 4Å: Chain A: E.150, V.157, H.160, K.161, Y.379, G.383, R.384 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.160, A:R.384 Hydrogen bonds: A:E.150, A:E.150

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 5 residues within 4Å: Chain A: S.333, I.334, E.344, R.345, L.348 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.334 DMS.4: 8 residues within 4Å: Chain A: M.140, F.141, Y.273, A.278, H.279, G.280, F.284, A.297 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.141, A:G.280 Water bridges: A:H.279, A:G.282 pi-Cation interactions: A:H.279

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

La Sala, G. et al., Combining structural and coevolution information to unveil allosteric sites. Chem Sci (2023)

Release Date

2023-07-12

Peptides

S-adenosylmethionine synthase isoform type-2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

S-adenosylmethionine synthase isoform type-2

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