New Insights about Enzyme Evolution from Large Scale Studies of Sequence and Structure Relationships

Promiscuity of Exiguobacterium sp. AT1b o-succinylbenzoate synthase illustrates evolutionary transitions in the OSBS family

(2014) Ashley M. Brizendine et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Connectivity between Catalytic Landscapes of the Metallo-β-Lactamase Superfamily

(2014) Florian Baier et al.   JOURNAL OF MOLECULAR BIOLOGY

Protein Domains of Unknown Function Are Essential in Bacteria

(2014) N. F. Goodacre et al.   mBio

Large-Scale Determination of Sequence, Structure, and Function Relationships in Cytosolic Glutathione Transferases across the Biosphere

(2014) Susan T. Mashiyama et al.   PLOS BIOLOGY

Divergent Evolution of Ligand Binding in the o-Succinylbenzoate Synthase Family

(2013) Denis Odokonyero et al.   BIOCHEMISTRY

The Structure–Function Linkage Database

(2013) Eyal Akiva et al.   NUCLEIC ACIDS RESEARCH

Activities at the Universal Protein Resource (UniProt)

(2013)   NUCLEIC ACIDS RESEARCH

Computational identification of novel biochemical systems involved in oxidation, glycosylation and other complex modifications of bases in DNA

(2013) Lakshminarayan M. Iyer et al.   NUCLEIC ACIDS RESEARCH

Protein Similarity Networks Reveal Relationships among Sequence, Structure, and Function within the Cupin Superfamily

(2013) Richard Uberto et al.   PLoS One

Consequences of domain insertion on sequence-structure divergence in a superfold

(2013) Chetanya Pandya et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

X-ray analysis of butirosin biosynthetic enzyme BtrN redefines structural motifs for AdoMet radical chemistry

(2013) P. J. Goldman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prediction of function for the polyprenyl transferase subgroup in the isoprenoid synthase superfamily

(2013) F. H. Wallrapp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Biases in the Experimental Annotations of Protein Function and Their Effect on Our Understanding of Protein Function Space

(2013) Alexandra M. Schnoes et al.   PLoS Computational Biology

Moonlighting is mainstream: Paradigm adjustment required

(2012) Shelley D. Copley   BIOESSAYS

Homology models guide discovery of diverse enzyme specificities among dipeptide epimerases in the enolase superfamily

(2012) T. Lukk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2012) Nicholas Furnham et al.   PLoS Computational Biology

Terpene Biosynthesis: Modularity Rules

(2011) Eric Oldfield et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Structural Insights into Radical Generation by the Radical SAM Superfamily

(2011) Jessica L. Vey et al.   CHEMICAL REVIEWS

Toward mechanistic classification of enzyme functions

(2011) Daniel E Almonacid et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Topological variation in the evolution of new reactions in functionally diverse enzyme superfamilies

(2011) Elaine C Meng et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Structural and mechanistic comparisons of the metal-binding members of the vicinal oxygen chelate (VOC) superfamily

(2011) Panqing He et al.   JOURNAL OF INORGANIC BIOCHEMISTRY

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

The evolution of function in strictosidine synthase-like proteins

(2011) Michael A. Hicks et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Non-homologous isofunctional enzymes: A systematic analysis of alternative solutions in enzyme evolution

(2010) Marina V Omelchenko et al.   Biology Direct

Structural characterization of the catalytic calcium-binding site in diisopropyl fluorophosphatase (DFPase)—Comparison with related β-propeller enzymes

(2010) Marc-Michael Blum et al.   CHEMICO-BIOLOGICAL INTERACTIONS

Analysis of the peroxiredoxin family: Using active-site structure and sequence information for global classification and residue analysis

(2010) Kimberly J. Nelson et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Evolution of Enzymatic Activities in the Enolase Superfamily: Stereochemically Distinct Mechanisms in Two Families ofcis,cis-Muconate Lactonizing Enzymes†‡

(2009) Ayano Sakai et al.   BIOCHEMISTRY

Markers of fitness in a successful enzyme superfamily

(2009) Karen N Allen et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Multifunctional roles of enolase in Alzheimer’s disease brain: beyond altered glucose metabolism

(2009) D. Allan Butterfield et al.   JOURNAL OF NEUROCHEMISTRY

Using Sequence Similarity Networks for Visualization of Relationships Across Diverse Protein Superfamilies

(2009) Holly J. Atkinson et al.   PLoS One

An Atlas of the Thioredoxin Fold Class Reveals the Complexity of Function-Enabling Adaptations

(2009) Holly J. Atkinson et al.   PLoS Computational Biology

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

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