SMTL ID : 7bhw.1

Crystal structure of MAT2a bound to allosteric inhibitor (compound 29)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.15 Å

Oligo State

homo-dimer

Ligands

2 x TNW: 7-chloranyl-4-(dimethylamino)-1-(3-methylphenyl)quinazolin-2-one(Non-covalent)

TNW.1: 18 residues within 4Å: Chain A: F.20, F.22, Q.192, V.197, G.275, W.276, G.277, R.315, Y.337 Chain B: G.277, A.278, L.317, Q.319, S.333, I.334, F.335, Y.337 Ligands: TNW.3 12 PLIP interactions: 7 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:F.20, A:F.20, A:F.22, B:A.278, B:L.317, B:F.335, B:Y.337 Hydrogen bonds: A:R.315, A:R.315 pi-Stacking: A:F.22, A:W.276, B:F.335 TNW.3: 18 residues within 4Å: Chain A: G.277, A.278, L.317, Q.319, S.333, I.334, F.335, Y.337 Chain B: F.20, F.22, Q.192, V.197, G.275, W.276, G.277, R.315, Y.337 Ligands: TNW.1 12 PLIP interactions: 5 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:A.278, A:L.317, A:F.335, A:Y.337, B:F.20, B:F.20, B:F.22 pi-Stacking: A:F.335, B:F.22, B:W.276 Hydrogen bonds: B:R.315, B:R.315

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

SAM.2: 18 residues within 4Å: Chain A: H.31, P.32, D.181, K.183, S.208, S.249, R.251, F.252, D.260 Chain B: A.57, E.72, Q.115, D.118, I.119, G.135, D.136, K.291, I.324 17 PLIP interactions: 7 interactions with chain B, 10 interactions with chain A Hydrogen bonds: B:E.72, B:E.72, B:Q.115, A:D.181, A:S.249, A:R.251, A:D.260 Water bridges: B:K.291, B:K.291, A:S.208, A:S.249, A:A.261 Salt bridges: B:D.136, B:K.291, A:D.260 pi-Stacking: A:F.252, A:F.252 SAM.4: 18 residues within 4Å: Chain A: A.57, E.72, Q.115, D.118, I.119, G.135, D.136, K.291, I.324 Chain B: H.31, P.32, D.181, K.183, S.208, S.249, R.251, F.252, D.260 17 PLIP interactions: 7 interactions with chain A, 10 interactions with chain B Hydrogen bonds: A:E.72, A:E.72, A:Q.115, B:D.181, B:S.249, B:R.251, B:D.260 Water bridges: A:K.291, A:K.291, B:S.208, B:S.249, B:A.261 Salt bridges: A:D.136, A:K.291, B:D.260 pi-Stacking: B:F.252, B:F.252

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

De Fusco, C. et al., Fragment-Based Design of a Potent MAT2a Inhibitor and in Vivo Evaluation in an MTAP Null Xenograft Model. J.Med.Chem. (2021)

Release Date

2021-04-21

Peptides

S-adenosylmethionine synthase isoform type-2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

S-adenosylmethionine synthase isoform type-2

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