A global analysis of function and conservation of catalytic residues in enzymes

Emerging concepts in pseudoenzyme classification, evolution, and signaling

(2019) António J. M. Ribeiro et al.   Science Signaling

funtrp: identifying protein positions for variation driven functional tuning

(2019) Maximilian Miller et al.   NUCLEIC ACIDS RESEARCH

Directed Evolution of Protein Catalysts

(2018) Cathleen Zeymer et al.   Annual Review of Biochemistry

PREvaIL, an integrative approach for inferring catalytic residues using sequence, structural, and network features in a machine-learning framework

(2018) Jiangning Song et al.   JOURNAL OF THEORETICAL BIOLOGY

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

CATH: expanding the horizons of structure-based functional annotations for genome sequences

(2018) Ian Sillitoe et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database in 2019

(2018) Sara El-Gebali et al.   NUCLEIC ACIDS RESEARCH

Mechanism and Catalytic Site Atlas (M-CSA): a database of enzyme reaction mechanisms and active sites

(2017) António J M Ribeiro et al.   NUCLEIC ACIDS RESEARCH

The coming of age of de novo protein design

(2016) Po-Ssu Huang et al.   NATURE

Structural Basis for the Non-catalytic Functions of Protein Kinases

(2016) Jennifer E. Kung et al.   STRUCTURE

Expanding the Enzyme Universe: Accessing Non-Natural Reactions by Mechanism-Guided Directed Evolution

(2015) Hans Renata et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

The Phyre2 web portal for protein modeling, prediction and analysis

(2015) Lawrence A Kelley et al.   Nature Protocols

An evolutionary biochemist's perspective on promiscuity

(2015) Shelley D. Copley   TRENDS IN BIOCHEMICAL SCIENCES

Exploring the Biological and Chemical Complexity of the Ligases

(2014) Gemma L. Holliday et al.   JOURNAL OF MOLECULAR BIOLOGY

EC-BLAST: a tool to automatically search and compare enzyme reactions

(2014) Syed Asad Rahman et al.   NATURE METHODS

EzCatDB: the enzyme reaction database, 2015 update

(2014) Nozomi Nagano et al.   NUCLEIC ACIDS RESEARCH

The Natural History of Biocatalytic Mechanisms

(2014) Neetika Nath et al.   PLoS Computational Biology

Fifty-five years of enzyme classification: advances and difficulties

(2013) Andrew G. McDonald et al.   FEBS Journal

A large-scale evaluation of computational protein function prediction

(2013) Predrag Radivojac et al.   NATURE METHODS

The Structure–Function Linkage Database

(2013) Eyal Akiva et al.   NUCLEIC ACIDS RESEARCH

SCOP2 prototype: a new approach to protein structure mining

(2013) Antonina Andreeva et al.   NUCLEIC ACIDS RESEARCH

The Catalytic Site Atlas 2.0: cataloging catalytic sites and residues identified in enzymes

(2013) Nicholas Furnham et al.   NUCLEIC ACIDS RESEARCH

Exploring the Evolution of Novel Enzyme Functions within Structurally Defined Protein Superfamilies

(2012) Nicholas Furnham et al.   PLoS Computational Biology

Characterizing the complexity of enzymes on the basis of their mechanisms and structures with a bio-computational analysis

(2011) Gemma L. Holliday et al.   FEBS Journal

MACiE: exploring the diversity of biochemical reactions

(2011) Gemma L. Holliday et al.   NUCLEIC ACIDS RESEARCH

Enzyme Promiscuity: A Mechanistic and Evolutionary Perspective

(2010) Olga Khersonsky and Dan S. Tawfik   Annual Review of Biochemistry

The Structures and Physicochemical Properties of Organic Cofactors in Biocatalysis

(2010) Julia D. Fischer et al.   JOURNAL OF MOLECULAR BIOLOGY

Understanding the Functional Roles of Amino Acid Residues in Enzyme Catalysis

(2009) Gemma L. Holliday et al.   JOURNAL OF MOLECULAR BIOLOGY

The conserved NAD(H)-dependent corepressor CTBP-1 regulates Caenorhabditis elegans life span

(2009) S. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Annotation Error in Public Databases: Misannotation of Molecular Function in Enzyme Superfamilies

(2009) Alexandra M. Schnoes et al.   PLoS Computational Biology