ArticleNucleic acids research2012
MACiE: exploring the diversity of biochemical reactions.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- Metabolic Connectome and Its Role in the Prediction, Diagnosis, and Treatment of Complex Diseases.Metabolites · 2024Review
- Back in time to the Gly-rich prototype of the phosphate binding elementary function.Current research in structural biology · 2024Review
- Learning to Identify Physiological and Adventitious Metal-Binding Sites in the Three-Dimensional Structures of Proteins by Following the Hints of a Deep Neural Network.Journal of chemical information and modeling · 2022Review
- The Mechanism of Metal Homeostasis in Plants: A New View on the Synergistic Regulation Pathway of Membrane Proteins, Lipids and Metal Ions.Membranes · 2021Review
- Deriving and Using Descriptors of Elementary Functions in Rational Protein Design.Frontiers in bioinformatics · 2021Article
- Effect of sequence padding on the performance of deep learning models in archaeal protein functional prediction.Scientific reports · 2020Article
- A global analysis of function and conservation of catalytic residues in enzymes.The Journal of biological chemistry · 2020Review
- A strategy for large-scale comparison of evolutionary- and reaction-based classifications of enzyme function.Database : the journal of biological databases and curation · 2020Article
- SimCAL: a flexible tool to compute biochemical reaction similarity.BMC bioinformatics · 2018Article
- Mechanism and Catalytic Site Atlas (M-CSA): a database of enzyme reaction mechanisms and active sites.Nucleic acids research · 2018Article
- Systematic Identification and Classification of β-Lactamases Based on Sequence Similarity Criteria: β-Lactamase Annotation.Evolutionary bioinformatics online · 2018Article
- Article
- Structure-based prediction and identification of 4-epimerization activity of phosphate sugars in class II aldolases.Scientific reports · 2017Article
- Biocuration in the structure-function linkage database: the anatomy of a superfamily.Database : the journal of biological databases and curation · 2017Article
- Reaction Decoder Tool (RDT): extracting features from chemical reactions.Bioinformatics (Oxford, England) · 2016Article
- Exploring the chemistry and evolution of the isomerases.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Large-Scale Analysis Exploring Evolution of Catalytic Machineries and Mechanisms in Enzyme Superfamilies.Journal of molecular biology · 2016Article
- Nucleotide binding database NBDB--a collection of sequence motifs with specific protein-ligand interactions.Nucleic acids research · 2016Article
- FunTree: advances in a resource for exploring and contextualising protein function evolution.Nucleic acids research · 2016Article
- Enzyme mechanism prediction: a template matching problem on InterPro signature subspaces.BMC research notes · 2015Article
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7 authors.
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Abstract
MACiE (which stands for Mechanism, Annotation and Classification in Enzymes) is a database of enzyme reaction mechanisms, and can be accessed from http://www.ebi.ac.uk/thornton-srv/databases/MACiE/. This article presents the release of Version 3 of MACiE, which not only extends the dataset to 335 entries, covering 182 of the EC sub-subclasses with a crystal structure available (~90%), but also incorporates greater chemical and structural detail. This version of MACiE represents a shift in emphasis for new entries, from non-homologous representatives covering EC reaction space to enzymes with mechanisms of interest to our users and collaborators with a view to exploring the chemical diversity of life. We present new tools for exploring the data in MACiE and comparing entries as well as new analyses of the data and new searches, many of which can now be accessed via dedicated Perl scripts.
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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.