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Title: Structural analysis of mycobacterial homoserine transacetylases central to methionine biosynthesis reveals druggable active site

Journal Article · · Scientific Reports
 [1];  [2];  [1];  [3];  [4];  [1]
  1. Univ. of Kentucky, Lexington, KY (United States)
  2. The Ohio State Univ., Columbus, OH (United States); Univ. of Kentucky, Lexington, KY (United States)
  3. Gannan Medical Univ., Jiangxi (China); Univ. of Kentucky, Lexington, KY (United States)
  4. Georgetown College, KY (United States); Univ. of Kentucky, Lexington, KY (United States)

Mycobacterium tuberculosis is the cause of the world’s most deadly infectious disease. Efforts are underway to target the methionine biosynthesis pathway, as it is not part of the host metabolism. The homoserine transacetylase MetX converts L-homoserine to O-acetyl-L-homoserine at the committed step of this pathway. In order to facilitate structure-based drug design, we determined the high-resolution crystal structures of three MetX proteins, including M. tuberculosis (MtMetX), Mycolicibacterium abscessus (MaMetX), and Mycolicibacterium hassiacum (MhMetX). A comparison of homoserine transacetylases from other bacterial and fungal species reveals a high degree of structural conservation amongst the enzymes. Utilizing homologous structures with bound cofactors, we analyzed the potential ligandability of MetX. The deep active-site tunnel surrounding the catalytic serine yielded many consensus clusters during mapping, suggesting that MtMetX is highly druggable.

Research Organization:
Argonne National Laboratory (ANL), Argonne, IL (United States)
Sponsoring Organization:
National Inst. of Health; National Science Foundation Research Experiences for Undergraduates (REU); USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22); USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
Grant/Contract Number:
AC02-76SF00515; W-31109-ENG-38
OSTI ID:
1596134
Journal Information:
Scientific Reports, Journal Name: Scientific Reports Journal Issue: 1 Vol. 9; ISSN 2045-2322
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United States
Language:
ENGLISH

References (81)

A New Vaccine for Tuberculosis: The Challenges of Development and Deployment journal May 2009
One of These is Not Like the Others journal November 2015
Of barn owls and bankers: a lush variety of α/β hydrolases journal June 1999
The druggable genome: an update journal December 2005
Catalytic Mechanism of Fungal Homoserine Transacetylase † journal October 2005
Crystal Structure of Homoserine Transacetylase from Haemophilus influenzae Reveals a New Family of α/β-Hydrolases † , ‡ journal December 2005
Enzyme-Catalyzed Acylation of Homoserine:  Mechanistic Characterization of the Escherichia coli metA -Encoded Homoserine Transsuccinylase † journal October 1999
Comparison of Shape-Matching and Docking as Virtual Screening Tools journal January 2007
Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis journal June 2017
The FTMap family of web servers for determining and characterizing ligand-binding hot spots of proteins journal April 2015
The druggable genome journal September 2002
Derailing the aspartate pathway of Mycobacterium tuberculosis to eradicate persistent infection journal September 2019
Structure of ATP citrate lyase and the origin of citrate synthase in the Krebs cycle journal April 2019
Receptor binding and priming of the spike protein of SARS-CoV-2 for membrane fusion journal September 2020
Binding site characterization – similarity, promiscuity, and druggability journal January 2019
Structural conservation of druggable hot spots in protein-protein interfaces journal August 2011
Essential roles of methionine and S -adenosylmethionine in the autarkic lifestyle of Mycobacterium tuberculosis journal July 2015
A Single Amino Acid Change Is Responsible for Evolution of Acyltransferase Specificity in Bacterial Methionine Biosynthesis journal January 2008
Fragment-based identification of druggable ‘hot spots’ of proteins using Fourier domain correlation techniques journal January 2009
ESTHER, the database of the α/β-hydrolase fold superfamily of proteins: tools to explore diversity of functions journal November 2012
Cryptococcus neoformans methionine synthase: expression analysis and requirement for virulence journal September 2004
Global Epidemiology of Tuberculosis journal October 2014
Coot model-building tools for molecular graphics journal November 2004
XDS journal January 2010
Towards automated crystallographic structure refinement with phenix.refine journal March 2012
Structural Characterization of Inhibitors with Selectivity against Members of a Homologous Enzyme Family: Inhibitors Selective Against Homologous Enzymes journal November 2011
Role of Homoserine Transacetylase as a New Target for Antifungal Agents journal March 2007
Personal and Societal Health Quality Lost to Tuberculosis journal April 2009
Phosphorylated peptide of G protein-coupled receptor induces dimerization in activated arrestin text January 2020
Targetability of Human Disease Genes journal June 2007
Treatment Practices, Outcomes, and Costs of Multidrug-Resistant and Extensively Drug-Resistant Tuberculosis, United States, 2005–2007 journal May 2014
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features journal December 1983
UCSF Chimera?A visualization system for exploratory research and analysis journal January 2004
A New Vaccine for Tuberculosis: The Challenges of Development and Deployment journal May 2009
α/β Hydrolase fold enzymes: the family keeps growing journal December 1999
Of barn owls and bankers: a lush variety of α/β hydrolases journal June 1999
The druggable genome: an update journal December 2005
Crystal structure of homoserine O-acetyltransferase from Leptospira interrogans journal November 2007
Crystal structure and biochemical characterization of O-acetylhomoserine acetyltransferase from Mycobacterium smegmatis ATCC 19420 journal September 2019
Druggability of human disease genes journal January 2007
Structure-based druggability assessment—identifying suitable targets for small molecule therapeutics journal August 2011
Quantitative metrics for drug–target ligandability journal June 2018
Inference of Macromolecular Assemblies from Crystalline State journal September 2007
Mycobacterium abscessus: a new player in the mycobacterial field journal March 2010
One of These is Not Like the Others journal November 2015
ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB journal July 2015
Catalytic Mechanism of Fungal Homoserine Transacetylase † journal October 2005
Crystal Structure of Homoserine Transacetylase from Haemophilus influenzae Reveals a New Family of α/β-Hydrolases † , ‡ journal December 2005
Enzyme-Catalyzed Acylation of Homoserine:  Mechanistic Characterization of the Escherichia coli metA -Encoded Homoserine Transsuccinylase † journal October 1999
Hot Spot Analysis for Driving the Development of Hits into Leads in Fragment-Based Drug Discovery journal December 2011
Comparison of Shape-Matching and Docking as Virtual Screening Tools journal January 2007
β-Lactone natural products and derivatives inactivate homoserine transacetylase, a target for antimicrobial agents journal April 2011
Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis journal June 2017
The FTMap family of web servers for determining and characterizing ligand-binding hot spots of proteins journal April 2015
The druggable genome journal September 2002
Derailing the aspartate pathway of Mycobacterium tuberculosis to eradicate persistent infection journal September 2019
Binding site characterization – similarity, promiscuity, and druggability journal January 2019
Structural conservation of druggable hot spots in protein-protein interfaces journal August 2011
Essential roles of methionine and S -adenosylmethionine in the autarkic lifestyle of Mycobacterium tuberculosis journal July 2015
A Single Amino Acid Change Is Responsible for Evolution of Acyltransferase Specificity in Bacterial Methionine Biosynthesis journal January 2008
Infections caused by Mycobacterium abscessus : epidemiology, diagnostic tools and treatment journal October 2016
Fragment-based identification of druggable ‘hot spots’ of proteins using Fourier domain correlation techniques journal January 2009
ESTHER, the database of the α/β-hydrolase fold superfamily of proteins: tools to explore diversity of functions journal November 2012
A series of PDB-related databanks for everyday needs journal October 2014
Cryptococcus neoformans methionine synthase: expression analysis and requirement for virulence journal September 2004
Global Epidemiology of Tuberculosis journal October 2014
Phaser crystallographic software journal July 2007
Automatic multiple-zone rigid-body refinement with a large convergence radius journal July 2009
Coot model-building tools for molecular graphics journal November 2004
XDS journal January 2010
Towards automated crystallographic structure refinement with phenix.refine journal March 2012
Structure of homoserine O -acetyltransferase from Staphylococcus aureus : the first Gram-positive ortholog structure journal September 2014
Structural Characterization of Inhibitors with Selectivity against Members of a Homologous Enzyme Family: Inhibitors Selective Against Homologous Enzymes journal November 2011
Rifabutin Is Active against Mycobacterium abscessus Complex journal April 2017
Role of Homoserine Transacetylase as a New Target for Antifungal Agents journal March 2007
Personal and Societal Health Quality Lost to Tuberculosis journal April 2009
α/βHydrolase Fold: An Update journal October 2009
Targetability of Human Disease Genes journal June 2007
Treatment Practices, Outcomes, and Costs of Multidrug-Resistant and Extensively Drug-Resistant Tuberculosis, United States, 2005–2007 journal May 2014
Derailing the aspartate pathway of Mycobacterium tuberculosis to eradicate persistent infection text January 2019
The Catalytic Machinery of a Key Enzyme in Amino Acid Biosynthesis journal January 2011