Evidence map›Paper›PMID 29111295›Full record

ArticleArchives of biochemistry and biophysics2017

Kinetic and structural characterization of a cis-3-Chloroacrylic acid dehalogenase homologue in Pseudomonas sp. UW4: A potential step between subgroups in the tautomerase superfamily.

Jake A LeVieux, Bert-Jan Baas, Tamer S Kaoud, Rebecca Davidson, Patricia C Babbitt, Yan Jessie Zhang, Christian P Whitman

Abstract read
In one paragraph

Article in Archives of biochemistry and biophysics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
0.6field-weighted citation impact, top 34% 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

8 citing papers in PubMed, 8 citations in OpenAlex.

  1. Article
  2. Enzymatic reactions towards aldehydes: An overview.Flavour and fragrance journal · 2023
    Review
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
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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.

Jake A LeVieuxDepartment of Molecular Biosciences, Austin, TX 78712, USA.
Bert-Jan BaasDivision of Chemical Biology and Medicinal Chemistry, College of Pharmacy, Austin, TX, 78712, USA.
Tamer S KaoudDivision of Chemical Biology and Medicinal Chemistry, College of Pharmacy, Austin, TX, 78712, USA.
Rebecca DavidsonDepartments of Bioengineering and Therapeutic Sciences, San Francisco, CA, 94143, USA.
Patricia C BabbittDepartments of Bioengineering and Therapeutic Sciences, San Francisco, CA, 94143, USA; Pharmaceutical Chemistry, San Francisco, CA, 94143, USA; Quantitative Biosciences Institute, University of California, San Francisco, CA, 94143, USA.
Yan Jessie ZhangDepartment of Molecular Biosciences, Austin, TX 78712, USA; Institute for Cellular and Molecular Biology, University of Texas, Austin, TX, 78712, USA.
Christian P WhitmanDivision of Chemical Biology and Medicinal Chemistry, College of Pharmacy, Austin, TX, 78712, USA. Electronic address: whitman@austin.utexas.edu.
Austin College · USQuantitative BioSciences · USThe University of Texas at Austin · US

Funding

BMI Bioinformatics Training GrantsT32GM067547 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI HERNANDEZ, RYAN D. · 2003 to 2022
$6.6M
Laying the Foundation of Genomic EnzymologyR01GM060595 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI BABBITT, PATRICIA CLEMENT · 2000 to 2018
$5.4M
Integrative Program in Complex Biological System (ipCBS)T32EB009383 · NIBIB · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI MARSHALL, WALLACE, WEINER, ORION D · 2009 to 2022
$3.2M
ENZYMES OF THE META-FISSION PATHWAYR01GM041239 · NIGMS · UNIVERSITY OF TEXAS AUSTIN · PI WHITMAN, CHRISTIAN P. · 1995 to 2017
$3.0M
Howard Hughes Medical InstituteNIBIB NIH HHS T32 EB009383NIGMS NIH HHS R01 GM041239NIGMS NIH HHS R01 GM060595NIGMS NIH HHS T32 GM067547
6 · The paper itself

Abstract

A Pseudomonas sp. UW4 protein (UniProt K9NIA5) of unknown function was identified as similar to 4-oxalocrotonate tautomerase (4-OT)-like and cis-3-chloroacrylic acid dehalogenase (cis-CaaD)-like subgroups of the tautomerase superfamily (TSF). This protein lacks only Tyr-103 of the amino acids critical for cis-CaaD activity (Pro-1, His-28, Arg-70, Arg-73, Tyr-103, Glu-114). As it may represent an important variant of these enzymes, its kinetic and structural properties have been determined. The protein shows tautomerase activity with phenylenolpyruvate, but lacks native 4-OT activity and dehalogenase activity with the isomers of 3-chloroacrylic acid. It shows mostly low-level hydratase activity at pH 7.0, converting 2-oxo-3-pentynoate to acetopyruvate, consistent with cis-CaaD-like behavior. At pH 9.0, this compound results primarily in covalent modification of Pro-1, which is consistent with 4-OT-like behavior. These observations could reflect a pK

Indexed as

Bacterial ProteinsCrystallography, X-RayHydrolasesKineticsProtein DomainsPseudomonasBacterial Proteinscis-3-chloroacrylic acid dehalogenaseHydrolases2-Oxo-3-pentynoate4-Oxalocrotonate tauomerasecis-3-Chloroacrylic acid dehalogenaseEvolutionTautomerase superfamily

Identifiers

PMID29111295
PMCPMC5714680
OpenAlexW2766615883

What OpenQuestion holds

Textmetadata
LicenceTDM
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.