ISDA: 8P4H

Deposition Date 2023-05-21

Release Date 2023-08-30

Last Version Date 2024-10-23

Entry Detail

PDB ID:

8P4H

Keywords:

TRANSFERASE

Title:

Crystal structure of human methionine adenosyltransferase 2A (MAT2A) in complex with SAM and allosteric compound IDEAYA cmpd A

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.71 Å

R-Value Free:

0.18

R-Value Work:

0.15

R-Value Observed:

0.15

Space Group:

P 1 21 1

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:S-adenosylmethionine synthase isoform type-2
Gene (Uniprot):MAT2A
Chain IDs:A, B, C, D
Chain Length:412
Number of Molecules:4
Biological Source:Homo sapiens

UniProt ID:P31153 Pfam ID:PF00438, PF02772, PF02773 EC:2.5.1.6

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
CSO	A	CYS	modified residue

Ligand Molecules

GOL

SAM

UM6

Primary Citation

Discovery of novel methionine adenosyltransferase 2A (MAT2A) allosteric inhibitors by structure-based virtual screening.

Kalliokoski, T, Kettunen, H, Kumpulainen, E, Kettunen, E, Thieulin-Pardo, G, Neumann, L, Thomsen, M, Paul, R, Malyutina, A, Georgiadou, M.Show

Bioorg.Med.Chem.Lett. 94 129450 129450 (2023)

PMID: 37591318 DOI: 10.1016/j.bmcl.2023.129450

Abstact

Methionine adenosyltransferase 2A (MAT2A) has been indicated as a drug target for oncology indications. Clinical trials with MAT2A inhibitors are currently on-going. Here, a structure-based virtual screening campaign was performed on the commercially available chemical space which yielded two novel MAT2A-inhibitor chemical series. The binding modes of the compounds were confirmed with X-ray crystallography. Both series have acceptable physicochemical properties and show nanomolar activity in the biochemical MAT2A inhibition assay and single-digit micromolar activity in the proliferation assay (MTAP -/- cell line). The identified compounds and the relating structural data could be helpful in related drug discovery projects.

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Protein

Chemical

Disease

Primary Citation of related structures

Abstact

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