Evidence map›Paper›PMID 22998630›Full record

ArticleJournal of the American Chemical Society2012

Identification and characterization of the echinocandin B biosynthetic gene cluster from Emericella rugulosa NRRL 11440.

Ralph A Cacho, Wei Jiang, Yit-Heng Chooi, Christopher T Walsh, Yi Tang

Open access · greenAbstract read
In one paragraph

Article in Journal of the American Chemical Society, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 63 papers.

0numbers the graph read from it
0cells of the map it votes in
63citing papers in PubMed
5.7field-weighted citation impact, top 4% 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

63 citing papers in PubMed, 142 citations in OpenAlex.

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  11. Natural Products That Contain Higher Homologated Amino Acids.Chembiochem : a European journal of chemical biology · 2024
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  20. Review

3 more citing papers are in PubMed but not listed here.

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

5 authors at 2 institutions in 1 country.

Ralph A CachoDepartment of Chemical and Biomolecular Engineering, University of California, Los Angeles, 420 Westwood Plaza, Los Angeles, California 90095, USA.
Wei Jiang
Yit-Heng Chooi
Christopher T Walsh
Yi Tang
University of California, Los Angeles · USHarvard University · US

Funding

CHEMISTRY BIOLOGY INTERFACE TRAINING PROGRAMT32GM008496 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI MAYNARD, HEATHER D · 1993 to 2019
$6.3M
The Vancomycin Biosynthetic Assembly lineR01GM049338 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI WALSH, CHRISTOPHER T · 1993 to 2012
$6.2M
Rediscovering Natural Chemical Diversity -1DP1GM106413DP1GM106413 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI TANG, YI · 2012 to 2016
$3.9M
A Robust Platform for Reconstituting and Engineering Iterative MegasynthasesR01GM092217 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI TANG, YI · 2010 to 2012
$1.1M
NCCDPHP CDC HHS 1DP1GM106413NIGMS NIH HHS 1R01GM092217NIGMS NIH HHS 1R01GM49338NIGMS NIH HHS DP1 GM106413NIGMS NIH HHS GM08496NIGMS NIH HHS R01 GM049338NIGMS NIH HHS R01 GM092217NIGMS NIH HHS T32 GM008496
6 · The paper itself

Abstract

Echinocandins are a family of fungal lipidated cyclic hexapeptide natural products. Due to their effectiveness as antifungal agents, three semisynthetic derivatives have been developed and approved for treatment of human invasive candidiasis. All six of the amino acid residues are hydroxylated, including 4R,5R-dihydroxy-L-ornithine, 4R-hydroxyl-L-proline, 3S,4S-dihydroxy-L-homotyrosine, and 3S-hydroxyl-4S-methyl-L-proline. We report here the biosynthetic gene cluster of echinocandin B 1 from Emericella rugulosa NRRL 11440 containing genes encoding for a six-module nonribosomal peptide synthetase EcdA, an acyl-AMP ligase EcdI, and oxygenases EcdG, EcdH, and EcdK. We showed EcdI activates linoleate as linoleyl-AMP and installs it on the first thiolation domain of EcdA. We have also established through ATP-PP(i) exchange assay that EcdA loads L-ornithine in the first module. A separate hty gene cluster encodes four enzymes for de novo generation of L-homotyrosine from acetyl-CoA and 4-hydroxyphenyl-pyruvate is found from the sequenced genome. Deletions in the ecdA, and htyA genes validate their essential roles in echinocandin B production. Five predicted iron-centered oxygenase genes, ecdG, ecdH, ecdK, htyE, and htyF, in the two separate ecd and hty clusters are likely to be the tailoring oxygenases for maturation of the nascent NRPS lipohexapeptidolactam product.

Indexed as

Genes, FungalMultigene FamilyEchinocandinsEmericellaFungal ProteinsTyrosineechinocandin BEchinocandinsFungal ProteinsTyrosine

Identifiers

PMID22998630
PMCPMC3482383
OpenAlexW2040337932

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.