Evidence map›Paper›PMID 40610571›Full record

ArticleScientific reports2025

ez-CAZy a reference annotation database for linking glycoside hydrolase sequence to enzymatic activity.

Daniel S Erdody, Nicholas G Griffin, Renaud Berlemont

Abstract read
In one paragraph

Article in Scientific reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Unraveling the Glycosylation Machinery ofInternational journal of molecular sciences · 2026
    Article
  3. Article
  4. Article
  5. Article
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

3 authors.

Daniel S ErdodyDepartment of Biological Sciences, California State University Long Beach, Long Beach, CA, USA.
Nicholas G GriffinDepartment of Biological Sciences, California State University Long Beach, Long Beach, CA, USA.
Renaud BerlemontDepartment of Biological Sciences, California State University Long Beach, Long Beach, CA, USA. renaud.berlemont@csulb.edu.

Funding

US NSF 2138880
6 · The paper itself

Abstract

Glycoside Hydrolases (GH) are carbohydrate-active enzymes that play a critical role in the degradation of carbohydrates, impacting ecosystem function, human health, and biotechnological applications. The functional annotation of GHs within the CAZy database is hindered by the lack of sequence-specific definitions, annotation tools, and reliance on generalized "majority rule" activity assumptions. Here, we introduce ez-CAZy, a custom reference database designed to link GH sequences, as well as other CAZy, to their enzymatic activities. By reannotating over 7,000 biochemically characterized GHs using Hidden Markov Model profiles and other publicly accessible tools, we provide detailed sequence metadata, domain architectures, and functional predictions. Our analysis reveals the clustered distribution of enzymatic activities and multi-domain architectures within GH families, facilitating more precise functional predictions for newly identified sequences. The predictive accuracy of ez-CAZy was validated using over 500 recently characterized GHs, demonstrating functional annotation. ez-CAZy addresses critical gaps in GH annotation pipelines and offers a publicly accessible tool to support sequence analysis and enzymatic research. This work underscores the need for standardized enzyme characterization and expanded substrate testing to enhance annotation accuracy in future studies.

Indexed as

Databases, ProteinGlycoside HydrolasesMolecular Sequence AnnotationComputational BiologyHumansGlycoside HydrolasesAmylaseAnnotationCarbohydrate active enzymeCAZyCellulaseGlycoside hydrolase

Identifiers

PMID40610571
PMCPMC12229491

What OpenQuestion holds

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LicenceCC BY-NC-ND
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Registered trials

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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.