8P4H image
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:
Homo sapiens (Taxon ID: 9606)
Host Organism:
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
8P4H validation report
Macromolecular Entities
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
CL
GOL
MG
SAM
UM6
Primary Citation
Discovery of novel methionine adenosyltransferase 2A (MAT2A) allosteric inhibitors by structure-based virtual screening.
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
8P4H