Evidence map›Paper›PMID 26712008›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2016

One-carbon chemistry of oxalate oxidoreductase captured by X-ray crystallography.

Marcus I Gibson, Percival Yang-Ting Chen, Aileen C Johnson, Elizabeth Pierce, Mehmet Can, Stephen W Ragsdale, Catherine L Drennan

Open access · bronzeAbstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
4.7field-weighted citation impact, top 6% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

11 citing papers in PubMed, 22 citations in OpenAlex.

  1. Accumulation of heavy metals in the mycelium of Abortiporus biennis and their effect on oxalate oxidase activity.Biometals : an international journal on the role of metal ions in biology, biochemistry, and medicine · 2025
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  8. Binding site for coenzyme A revealed in the structure of pyruvate:ferredoxin oxidoreductase fromProceedings of the National Academy of Sciences of the United States of America · 2018
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 3 institutions in 1 country.

Marcus I GibsonDepartment of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139;ORCID http://orcid.org/0000-0003-0788-5510
Percival Yang-Ting ChenDepartment of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139;
Aileen C JohnsonDepartment of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139;
Elizabeth PierceDepartment of Biological Chemistry, University of Michigan, Ann Arbor, MI 48109;
Mehmet CanDepartment of Biological Chemistry, University of Michigan, Ann Arbor, MI 48109;
Stephen W RagsdaleDepartment of Biological Chemistry, University of Michigan, Ann Arbor, MI 48109;
Catherine L DrennanDepartment of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139 cdrennan@mit.edu.
Massachusetts Institute of Technology · USUniversity of Michigan · USHoward Hughes Medical Institute · US

Funding

Overall EvaluationP41GM103403 · NIGMS · CORNELL UNIVERSITY · PI EALICK, STEVEN E · 2012 to 2017
$14.3M
Enzymology of the Reductive Acetyl-CoA PathwayR37GM039451 · NIGMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI RAGSDALE, STEPHEN WILEY · 2012 to 2021
$4.0M
MECHANISMS OF METHYL TRANSFERS IN ACETYL-COA SYNTHESISR01GM039451 · NIGMS · UNIVERSITY OF WISCONSIN MILWAUKEE · PI RAGSDALE, STEPHEN WILEY · 1991 to 2011
$3.6M
Complex Metallocluster Structure and AssemblyR01GM069857 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI DRENNAN, CATHERINE L · 2004 to 2017
$3.1M
MECHANISMS OF METHYL TRANSFERS IN ACETYL-COA SYNTHESISR29GM039451 · NIGMS · UNIVERSITY OF WISCONSIN MILWAUKEE · PI RAGSDALE, STEPHEN W · 1988 to 1991
–
Howard Hughes Medical InstituteNIGMS NIH HHS GM069857NIGMS NIH HHS GM39451NIGMS NIH HHS P41 GM103403NIGMS NIH HHS R01 GM039451NIGMS NIH HHS R01 GM069857NIGMS NIH HHS R37 GM039451
6 · The paper itself

Abstract

Thiamine pyrophosphate (TPP)-dependent oxalate oxidoreductase (OOR) metabolizes oxalate, generating two molecules of CO2 and two low-potential electrons, thus providing both the carbon and reducing equivalents for operation of the Wood-Ljungdahl pathway of acetogenesis. Here we present structures of OOR in which two different reaction intermediate bound states have been trapped: the covalent adducts between TPP and oxalate and between TPP and CO2. These structures, along with the previously determined structure of substrate-free OOR, allow us to visualize how active site rearrangements can drive catalysis. Our results suggest that OOR operates via a bait-and-switch mechanism, attracting substrate into the active site through the presence of positively charged and polar residues, and then altering the electrostatic environment through loop and side chain movements to drive catalysis. This simple but elegant mechanism explains how oxalate, a molecule that humans and most animals cannot break down, can be used for growth by acetogenic bacteria.

Indexed as

CarbonCatalytic DomainCrystallography, X-RayModels, MolecularMoorellaOxalatesOxidation-ReductionOxidoreductasesProtein Structure, TertiarySolventsCarbonOxalatesOxidoreductasesSolventscarbon dioxideoxalateoxidoreductasethiamine pyrophosphate

Identifiers

PMID26712008
PMCPMC4720323
OpenAlexW2207217725

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.