9BR6

Crystal structure of human succinyl-CoA:glutarate-CoA transferase (SUGCT)

  • Classification: TRANSFERASE
  • Organism(s): Homo sapiens
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2024-05-10 Released: 2024-08-07 
  • Deposition Author(s): Khamrui, S., Lazarus, M.B.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.222 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


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Literature

Characterization, Structure, and Inhibition of the Human Succinyl-CoA:glutarate-CoA Transferase, a Putative Genetic Modifier of Glutaric Aciduria Type 1.

Wu, R.Khamrui, S.Dodatko, T.Leandro, J.Sabovic, A.Violante, S.Cross, J.R.Marsan, E.Kumar, K.DeVita, R.J.Lazarus, M.B.Houten, S.M.

(2024) ACS Chem Biol 19: 1544-1553

  • DOI: https://doi.org/10.1021/acschembio.4c00204
  • Primary Citation of Related Structures:  
    9BR6, 9BR7

  • PubMed Abstract: 

    Glutaric Aciduria Type 1 (GA1) is a serious inborn error of metabolism with no pharmacological treatments. A novel strategy to treat this disease is to divert the toxic biochemical intermediates to less toxic or nontoxic metabolites. Here, we report a putative novel target, succinyl-CoA:glutarate-CoA transferase (SUGCT), which we hypothesize suppresses the GA1 metabolic phenotype through decreasing glutaryl-CoA and the derived 3-hydroxyglutaric acid. SUGCT is a type III CoA transferase that uses succinyl-CoA and glutaric acid as substrates. We report the structure of SUGCT, develop enzyme- and cell-based assays, and identify valsartan and losartan carboxylic acid as inhibitors of the enzyme in a high-throughput screen of FDA-approved compounds. The cocrystal structure of SUGCT with losartan carboxylic acid revealed a novel pocket in the active site and further validated the high-throughput screening approach. These results may form the basis for the future development of new pharmacological intervention to treat GA1.


  • Organizational Affiliation

    Department of Pharmacological Sciences, Drug Discovery Institute, Icahn School of Medicine at Mount Sinai, New York, New York 10029, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Succinate--hydroxymethylglutarate CoA-transferase
A, B
412Homo sapiensMutation(s): 0 
Gene Names: SUGCTC7orf10DERP13
EC: 2.8.3.13
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HAC7 (Homo sapiens)
Explore Q9HAC7 
Go to UniProtKB:  Q9HAC7
PHAROS:  Q9HAC7
GTEx:  ENSG00000175600 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HAC7
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.222 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.083α = 90
b = 115.126β = 100.79
c = 79.22γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
XDSdata reduction
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM124838

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-07
    Type: Initial release