Evidence map›Paper›PMID 29057979›Full record

ArticleScientific reports2017

Zymophore identification enables the discovery of novel phenylalanine ammonia lyase enzymes.

Nicholas J Weise, Syed T Ahmed, Fabio Parmeggiani, James L Galman, Mark S Dunstan, Simon J Charnock, David Leys, Nicholas J Turner

Abstract read
In one paragraph

Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
–field-weighted citation impact
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

13 citing papers in PubMed.

  1. Article
  2. Review
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  4. Article
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  7. Article
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  9. Article
  10. Purification and Characterization ofJournal of microbiology and biotechnology · 2020
    Article
  11. 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

8 authors.

Nicholas J WeiseSchool of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom.
Syed T AhmedSchool of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom.
Fabio ParmeggianiSchool of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom.ORCID 0000-0001-5861-9269
James L GalmanSchool of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom.
Mark S DunstanSYNBIOCHEM, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom.
Simon J CharnockProzomix Ltd., Station Court, Haltwhistle, Northumberland, NE49 9HN, United Kingdom.
David LeysSchool of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom.
Nicholas J TurnerSchool of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, United Kingdom. nicholas.turner@manchester.ac.uk.ORCID 0000-0002-8708-0781

Funding

Biotechnology and Biological Sciences Research Council BB/K00199X/1Biotechnology and Biological Sciences Research Council BB/M017702/1
6 · The paper itself

Abstract

The suite of biological catalysts found in Nature has the potential to contribute immensely to scientific advancements, ranging from industrial biotechnology to innovations in bioenergy and medical intervention. The endeavour to obtain a catalyst of choice is, however, wrought with challenges. Herein we report the design of a structure-based annotation system for the identification of functionally similar enzymes from diverse sequence backgrounds. Focusing on an enzymatic activity with demonstrated synthetic and therapeutic relevance, five new phenylalanine ammonia lyase (PAL) enzymes were discovered and characterised with respect to their potential applications. The variation and novelty of various desirable traits seen in these previously uncharacterised enzymes demonstrates the importance of effective sequence annotation in unlocking the potential diversity that Nature provides in the search for tailored biological tools. This new method has commercial relevance as a strategy for assaying the 'evolvability' of certain enzyme features, thus streamlining and informing protein engineering efforts.

Indexed as

Amino Acid SequenceBacterial ProteinsBiocatalysisDrug DiscoveryEnzyme StabilityPhenylalanine Ammonia-LyaseProtein ConformationSequence AnalysisStructure-Activity RelationshipBacterial ProteinsPhenylalanine Ammonia-Lyase

Identifiers

PMID29057979
PMCPMC5651878

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.