9QPO | pdb_00009qpo

CryoEM structure of human MATa2 in complex with MATBv2 at 2.6 A resolution


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 2.2 of the entry. See complete history

Literature

CryoEM structures reveal allosteric regulation of the catalytic activity of the multi-protein human MAT enzyme complexes.

Khaja, F.T.Vara, R.Aspinall, L.P.Merriman, C.Maerivoet, A.White, J.B.R.Muench, S.P.Hasnain, S.S.Antonyuk, S.V.

(2026) IUCrJ 

  • DOI: https://doi.org/10.1107/S2052252526005075
  • Primary Citation Related Structures: 
    30GD, 30GH, 9QPO, 9QPP

  • PubMed Abstract: 

    S-Adenosyl methionine (SAMe), the biological methyl donor essential for sustaining the life of most complex organisms, is the second most widely used cofactor, after ATP, in biochemical reactions and is synthesized by the enzyme methionine adenosyl transferase (MAT) from ATP and methionine. MAT, also known as S-adenosylmethionine synthetase, is found in almost every organism. SAMe is employed universally by different methyltransferases that catalyze the methylation of biomolecules such as nucleic acids, proteins and lipids. In plant cells SAMe produced by MAT enzymes controls the level of critical metabolites such as ethylene, polyamines and biotin, and regulates essential cellular processes such as cell division and synthesis of cell wall, chlorophyll and membrane. MAT enzyme complex MATα2β, comprising the catalytic unit MATα2 and the regulatory protein MATβ, is found in nearly all human tissues and is essential for providing the necessary SAMe flux for methylation of DNA and various proteins including histones. The enzymatic activity of MATα2 is enhanced by several fold upon complexation with both variants of MATβ (βV1 and βV2). Using cryogenic electron microscopy, we determined the high-resolution resting-state structures of the MATα2 4 βV1 2 and MATα2 4 βV2 2 complexes, providing insights into the allosteric regulation of MAT catalytic activity, revealing how MATβV association could facilitate substrate binding, stabilize the transition state and promote product release to drive the catalytic cycle, and opening new possibilities for inhibitor binding.


  • Organizational Affiliation
    • Molecular Biophysics Group, Department of Biochemistry, Cell and Systems Biology, Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool L69 7ZB, United Kingdom.

Macromolecule Content 

  • Total Structure Weight: 284.23 kDa 
  • Atom Count: 11,801 
  • Modeled Residue Count: 1,515 
  • Deposited Residue Count: 2,549 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
S-adenosylmethionine synthase isoform type-2
A, B, C, D
395Homo sapiensMutation(s): 0 
Gene Names: MAT2AAMS2MATA2
EC: 2.5.1.6
UniProt & NIH Common Fund Data Resources
Find proteins for P31153 (Homo sapiens)
Explore P31153 
Go to UniProtKB:  P31153
PHAROS:  P31153
GTEx:  ENSG00000168906 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP31153
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Isoform 2 of Methionine adenosyltransferase 2 subunit betaE,
F [auth G],
G [auth F]
323Homo sapiensMutation(s): 0 
Gene Names: MAT2BTGRMSTP045Nbla02999UNQ2435/PRO4995
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NZL9 (Homo sapiens)
Explore Q9NZL9 
Go to UniProtKB:  Q9NZL9
PHAROS:  Q9NZL9
GTEx:  ENSG00000038274 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9NZL9
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.1_5286
RECONSTRUCTIONcryoSPARC

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2026-04-08
    Type: Initial release
  • Version 2.0: 2026-05-06
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
  • Version 2.1: 2026-05-13
    Changes: Data collection
  • Version 2.2: 2026-07-08
    Changes: Data collection, Database references