Evidence map›Paper›PMID 21543318›Full record

ArticleThe Journal of biological chemistry2011

Structure and function of the RedJ protein, a thioesterase from the prodiginine biosynthetic pathway in Streptomyces coelicolor.

Jonathan R Whicher, Galina Florova, Paulina K Sydor, Renu Singh, Mamoun Alhamadsheh, Gregory L Challis, Kevin A Reynolds, Janet L Smith

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.

0numbers the graph read from it
0cells of the map it votes in
26citing papers in PubMed
3.4field-weighted citation impact, top 10% 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

26 citing papers in PubMed, 50 citations in OpenAlex.

  1. Article
  2. Article
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  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Thioesterase enzyme families: Functions, structures, and mechanisms.Protein science : a publication of the Protein Society · 2022
    Article
  11. Article
  12. Biosynthesis of depsipeptides, or Depsi: The peptides with varied generations.Protein science : a publication of the Protein Society · 2020
    Review
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
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  20. Review
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

8 authors at 3 institutions in 2 countries.

Jonathan R WhicherChemical Biology Graduate Program, University of Michigan, Ann Arbor, Michigan 48109, USA.
Galina Florova
Paulina K Sydor
Renu Singh
Mamoun Alhamadsheh
Gregory L Challis
Kevin A Reynolds
Janet L Smith
Portland State University · USUniversity of Michigan–Ann Arbor · USUniversity of Warwick · GB

Funding

STRUCTURE AND FUNCTION OF A PURINE BIOSYNTHETIC ENZYMER01DK042303 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI SMITH, JANET L. · 1990 to 2024
$6.6M
GLUTAMINE AMIDOTRANSFERASES AND PARTNER ENZYMESR37DK042303 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI SMITH, JANET L. · 1998 to 2007
$2.4M
Deciphering the steps of prodiginine biosynthesisR01GM077147 · NIGMS · PORTLAND STATE UNIVERSITY · PI REYNOLDS, KEVIN A · 2007 to 2010
$1.9M
NCI NIH HHS CA Y1-CO-1020NIDDK NIH HHS DK42303NIDDK NIH HHS R01 DK042303NIDDK NIH HHS R37 DK042303NIGMS NIH HHS GM77147NIGMS NIH HHS GM Y1-GM-1104NIGMS NIH HHS R01 GM077147
6 · The paper itself

Abstract

Prodiginines are a class of red-pigmented natural products with immunosuppressant, anticancer, and antimalarial activities. Recent studies on prodiginine biosynthesis in Streptomyces coelicolor have elucidated the function of many enzymes within the pathway. However, the function of RedJ, which was predicted to be an editing thioesterase based on sequence similarity, is unknown. We report here the genetic, biochemical, and structural characterization of the redJ gene product. Deletion of redJ in S. coelicolor leads to a 75% decrease in prodiginine production, demonstrating its importance for prodiginine biosynthesis. RedJ exhibits thioesterase activity with selectivity for substrates having long acyl chains and lacking a β-carboxyl substituent. The thioesterase has 1000-fold greater catalytic efficiency with substrates linked to an acyl carrier protein (ACP) than with the corresponding CoA thioester substrates. Also, RedJ strongly discriminates against the streptomycete ACP of fatty acid biosynthesis in preference to RedQ, an ACP of the prodiginine pathway. The 2.12 Å resolution crystal structure of RedJ provides insights into the molecular basis for the observed substrate selectivity. A hydrophobic pocket in the active site chamber is positioned to bind long acyl chains, as suggested by a long-chain ligand from the crystallization solution bound in this pocket. The accessibility of the active site is controlled by the position of a highly flexible entrance flap. These data combined with previous studies of prodiginine biosynthesis in S. coelicolor support a novel role for RedJ in facilitating transfer of a dodecanoyl chain from one acyl carrier protein to another en route to the key biosynthetic intermediate 2-undecylpyrrole.

Indexed as

Catalytic DomainCrystallography, X-RayKineticsModels, MolecularProdigiosinSequence DeletionStreptomyces coelicolorSubstrate SpecificityThiolester HydrolasesprodiginineProdigiosinThiolester Hydrolases

Identifiers

PMID21543318
PMCPMC3121400
OpenAlexW2004510609

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.