S. Copley

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Why metabolic enzymes are essential or nonessential for growth of Escherichia coli K12 on glucose.

Juhan Kim, S. Copley, 2007, Biochemistry.

Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network

Juhan Kim, S. Copley, 2012, Proceedings of the National Academy of Sciences.

Moonlighting is mainstream: Paradigm adjustment required

S. Copley, 2012, BioEssays : news and reviews in molecular, cellular and developmental biology.

The physical basis and practical consequences of biological promiscuity

S. Copley, 2020, Physical biology.

The uncatalyzed Claisen rearrangement of chorismate to prephenate prefers a transition state of chair-like geometry

J. Knowles, S. Copley, 1985 .

The conformational equilibrium of chorismate in solution: implications for the mechanism of the non-enzymic and the enzyme-catalyzed rearrangement of chorismate to prephenate

J. Knowles, S. Copley, 1987 .

Recruitment of a double bond isomerase to serve as a reductive dehalogenase during biodegradation of pentachlorophenol.

S. Copley, B. Donohoe, K. Anandarajah, 2000, Biochemistry.

Enzymes with extra talents: moonlighting functions and catalytic promiscuity.

S. Copley, 2003, Current opinion in chemical biology.

Shining a light on enzyme promiscuity.

S. Copley, 2017, Current opinion in structural biology.

Evolution of efficient pathways for degradation of anthropogenic chemicals.

S. Copley, Shelley D Copley, 2009, Nature chemical biology.

Sequestration of a highly reactive intermediate in an evolving pathway for degradation of pentachlorophenol

S. Copley, J. Rudolph, K. Hlouchová, 2013, Proceedings of the National Academy of Sciences.

Divergence of function in the thioredoxin fold suprafamily: evidence for evolution of peroxiredoxins from a thioredoxin-like ancestor.

Patricia C Babbitt, Walter R P Novak, P. Babbitt, 2004, Biochemistry.

The possibility of alternative microbial life on Earth

Carol E. Cleland, Shelley D. Copley, S. Copley, 2005, International Journal of Astrobiology.

Characterization of the initial steps in the reductive dehalogenation catalyzed by tetrachlorohydroquinone dehalogenase.

S. Copley, P. Kiefer, 2002, Biochemistry.

A mechanistic investigation of the thiol-disulfide exchange step in the reductive dehalogenation catalyzed by tetrachlorohydroquinone dehalogenase.

S. Copley, J. Warner, S. Lawson, 2005, Biochemistry.

MotifCluster: an interactive online tool for clustering and visualizing sequences using shared motifs

R. Knight, S. Copley, M. Hamady, 2008, Genome Biology.

Evolution of new enzymes by gene duplication and divergence

S. Copley, 2020, The FEBS journal.

Mutations that improve efficiency of a weak-link enzyme are rare compared to adaptive mutations elsewhere in the genome

S. Copley, V. Cooper, Christopher C. Ebmeier, 2019, eLife.

Mutations that improve the efficiency of a weak-link enzyme are rare compared to adaptive mutations elsewhere in the genome

S. Copley, V. Cooper, Christopher C. Ebmeier, 2019, bioRxiv.

Setting the stage for evolution of a new enzyme.

S. Copley, 2021, Current opinion in structural biology.

5.16 – Microbial Dehalogenases

S. Copley, 1999 .

The orphan protein bis-γ-glutamylcystine reductase joins the pyridine nucleotide disulfide reductase family.

Juhan Kim, S. Copley, 2013, Biochemistry.

Diverse mechanistic approaches to difficult chemical transformations: microbial dehalogenation of chlorinated aromatic compounds.

S. Copley, 1997, Chemistry & biology.

The mechanism of the chorismate mutase reaction

J. Knowles, S. Copley, W. Guilford, 1987 .

How to Recruit a Promiscuous Enzyme to Serve a New Function.

S. Copley, M. Newton, Karl A Widney, 2022, Biochemistry.

Reactivity landscape of pyruvate under simulated hydrothermal vent conditions

S. Copley, Y. Novikov, 2013, Proceedings of the National Academy of Sciences.

EXPLORATION OF POSSIBLE MECHANISMS FOR 4-CHLOROBENZOYL COA DEHALOGENASE : EVIDENCE FOR AN ARYL-ENZYME INTERMEDIATE

G. P. Crooks, S. Copley, R. Barkley, 1995 .

Amplicon Remodeling and Genomic Mutations Drive Population Dynamics after Segmental Amplification

S. Copley, Ryan K. Fritts, A. Morgenthaler, 2021, Molecular biology and evolution.

Detection and possible origins of aminomalonic acid in protein hydrolysates.

S. Copley, T. Koch, W. Kirsch, 1992, Analytical biochemistry.

A dimethyl ketal-protected benzoin-based linker suitable for photolytic release of unprotected peptides.

S. Copley, R. Shoemaker, Y. Novikov, 2011, The Journal of organic chemistry.

A surprising effect of leaving group on the nucleophilic aromatic substitution reaction catalyzed by 4-chlorobenzoyl-CoA dehalogenase

G. P. Crooks, S. Copley, 1993 .

Identification and localization of a stable sulfenic acid in peroxide-treated tetrachlorohydroquinone dehalogenase using electrospray mass spectrometry.

S. Copley, W. Willett, 1996, Chemistry & biology.

Microbial dehalogenases: enzymes recruited to convert xenobiotic substrates.

S. Copley, 1998, Current opinion in chemical biology.

An evolutionary biochemist's perspective on promiscuity.

S. Copley, 2015, Trends in biochemical sciences.

A Radical Intermediate in the Conversion of Pentachlorophenol to Tetrachlorohydroquinone by Sphingobium chlorophenolicum

S. Copley, J. Rudolph, L. Behlen, 2014, Biochemistry.

A mechanism for the association of amino acids with their codons and the origin of the genetic code.

Eric Smith, Eric Smith, H. Morowitz, 2005, Proceedings of the National Academy of Sciences of the United States of America.

Pentachlorophenol hydroxylase, a poorly functioning enzyme required for degradation of pentachlorophenol by Sphingobium chlorophenolicum.

S. Copley, J. Rudolph, L. Behlen, 2012, Biochemistry.

AROMATIC DEHALOGENASES: INSIGHTS INTO STRUCTURES, MECHANISMS, AND EVOLUTIONARY ORIGINS

S. Copley, 2004 .

A Previously Unrecognized Step in Pentachlorophenol Degradation in Sphingobium chlorophenolicum Is Catalyzed by Tetrachlorobenzoquinone Reductase (PcpD)

S. Copley, J. Warner, Minghua Dai, 2003, Journal of bacteriology.

Toward a Systems Biology Perspective on Enzyme Evolution*

S. Copley, 2011, The Journal of Biological Chemistry.

A Simple Route for Synthesis of 4-Phospho-D-Erythronate.

S. Copley, B. Eaton, Y. Novikov, 2011, Tetrahedron letters.

Visualization of protoplast fusion and quantitation of recombination in fused protoplasts of auxotrophic strains of Escherichia coli.

Ryan T Gill, S. Copley, R. Gill, 2005, Metabolic engineering.

A versatile and highly efficient method for scarless genome editing in Escherichia coli and Salmonella enterica

Juhan Kim, S. Copley, A. Webb, 2014, BMC Biotechnology.

A Synonymous Mutation Upstream of the Gene Encoding a Weak-Link Enzyme Causes an Ultrasensitive Response in Growth Rate

Juhan Kim, S. Copley, Christopher C. Ebmeier, 2016, Journal of bacteriology.

Genome-Wide Analysis of Transcriptional Changes and Genes That Contribute to Fitness during Degradation of the Anthropogenic Pollutant Pentachlorophenol by Sphingobium chlorophenolicum

S. Copley, J. Flood, 2018, mSystems.

Synthesis of stereoselectively labeled [9-2H,3H]chorismate and the stereochemical course of 5-enolpyruvoylshikimate-3-phosphate synthethase

J. Knowles, S. Copley, C. Grimshaw, 1984 .

Genome Shuffling Improves Degradation of the Anthropogenic Pesticide Pentachlorophenol by Sphingobium chlorophenolicum ATCC 39723

S. Copley, Minghua Dai, 2004, Applied and Environmental Microbiology.

Evolution and the Enzyme

S. Copley, 2010 .

In vivo levels of chlorinated hydroquinones in a pentachlorophenol-degrading bacterium

S. Copley, A. Claude, D. McCarthy, 1997, Applied and environmental microbiology.

Evolution of a metabolic pathway for degradation of a toxic xenobiotic: the patchwork approach.

S. Copley, Shelley D. Copley, 2000, Trends in biochemical sciences.

Three serendipitous pathways in E. coli can bypass a block in pyridoxal-5′-phosphate synthesis

Juhan Kim, Jamie P Kershner, Richard K Shoemaker, 2010, Molecular systems biology.

Members of a Novel Kinase Family (DUF1537) Can Recycle Toxic Intermediates into an Essential Metabolite.

O. Fiehn, S. Copley, V. de Crécy-Lagard, 2016, ACS chemical biology.

Synonymous mutations make dramatic contributions to fitness when growth is limited by a weak-link enzyme

S. Copley, V. Cooper, Christopher C. Ebmeier, 2018, PLoS genetics.

The Whole Genome Sequence of Sphingobium chlorophenolicum L-1: Insights into the Evolution of the Pentachlorophenol Degradation Pathway

Pernilla Turner, S. Copley, M. Nolan, 2011, Genome biology and evolution.

Hidden resources in the Escherichia coli genome restore PLP synthesis and robust growth after deletion of the essential gene pdxB

U. Sauer, Juhan Kim, S. Copley, 2019, Proceedings of the National Academy of Sciences.

Multiple turnovers of the nicotino-enzyme PdxB require α-keto acids as cosubstrates.

Juhan Kim, S. Copley, J. Rudolph, 2010, Biochemistry.

The origin of the RNA world: co-evolution of genes and metabolism.

Eric Smith, Eric Smith, H. Morowitz, 2007, Bioorganic chemistry.

Determinants for efficient editing with Cas9-mediated recombineering in Escherichia coli.

S. Copley, J. Kaar, Alaksh Choudhury, 2020, ACS synthetic biology.

Lateral gene transfer and parallel evolution in the history of glutathione biosynthesis genes

S. Copley, Jasvinder K Dhillon, 2002, Genome Biology.

Bacterial sources and sinks of isoprene, a reactive atmospheric hydrocarbon.

S. Copley, R. Fall, Ray Fall, 2000, Environmental microbiology.

Successful aerobic bioremediation of groundwater contaminated with higher chlorinated phenols by indigenous degrader bacteria.

S. Copley, M. Romantschuk, A. Mikkonen, 2018, Water research.

Enzymic Dehalogenation of 4-Chlorobenzoyl Coenzyme A in Acinetobacter sp. Strain 4-CB1

G. P. Crooks, S. Copley, 1992, Applied and environmental microbiology.

SYNTHESIS OF STEREOSELECTIVELY LABELED (9-2H,3H)CHORISMATE AND THE STEREOCHEMICAL COURSE OF 5-ENOLPYRUVOYLSHIKIMATE-3-PHOSPHATE SYNTHETASE

J. Knowles, S. Copley, C. Grimshaw, 1984 .

An evolutionary perspective on protein moonlighting.

S. Copley, Shelley D Copley, 2014, Biochemical Society transactions.

Purification and characterization of 4-chlorobenzoyl CoA dehalogenase from Arthrobacter sp. strain 4-CB1.

G. P. Crooks, S. Copley, 1994, Biochemistry.

Pre-steady-state kinetic studies of the reductive dehalogenation catalyzed by tetrachlorohydroquinone dehalogenase.

S. Copley, J. Warner, 2007, Biochemistry.

Exploration of the relationship between tetrachlorohydroquinone dehalogenase and the glutathione S-transferase superfamily.

P. Babbitt, S. Copley, S. Navarrete, 1996, Biochemistry.

Identification of a Covalent Intermediate between Glutathione and Cysteine13 Formed during Catalysis by Tetrachlorohydroquinone Dehalogenase

S. Copley, D. F. Louie, D. McCarthy, 1997 .

Evidence that pcpA encodes 2,6-dichlorohydroquinone dioxygenase, the ring cleavage enzyme required for pentachlorophenol degradation in Sphingomonas chlorophenolica strain ATCC 39723.

P. Babbitt, K. Resing, S. Copley, 1999, Biochemistry.

The reaction catalyzed by tetrachlorohydroquinone dehalogenase does not involve nucleophilic aromatic substitution.

S. Copley, P. Kiefer, D. McCarthy, 2002, Biochemistry.

Differential Effects of a Mutation on the Normal and Promiscuous Activities of Orthologs: Implications for Natural and Directed Evolution

S. Copley, Jamie P. Kershner, Sean Yu McLoughlin, 2014, Molecular biology and evolution.

A compromise required by gene sharing enables survival: Implications for evolution of new enzyme activities

S. Copley, S. Y. McLoughlin, 2008, Proceedings of the National Academy of Sciences.

Mechanism of the severe inhibition of tetrachlorohydroquinone dehalogenase by its aromatic substrates.

S. Copley, J. Warner, 2007, Biochemistry.

CodaChrome: a tool for the visualization of proteome conservation across all fully sequenced bacterial genomes

S. Copley, R. Dowell, J. Rokicki, 2014, BMC Genomics.

Recognition, isolation, and characterization of rat liver D-methylmalonyl coenzyme A hydrolase.

S. Copley, R. Allen, R. J. Kovachy, 1983, The Journal of biological chemistry.

Multiple turnovers of the nicotino-enzyme PdxB require α-keto acids as cosubstrates.

Juhan Kim, S. Copley, J. Rudolph, 2010, Biochemistry.

Genomics of ecology and industrial microbiology.

S. Copley, R. Rappuoli, 2009, Current opinion in microbiology.

The possibility of alternative microbial life on Earth

Carol E. Cleland, S. Copley, 2005, International Journal of Astrobiology.

CRISPR-Cas9-assisted genome editing in E. coli elevates the frequency of unintended mutations

S. Copley, Karl A Widney, Dong-Dong Yang, 2024, bioRxiv.

Lateral gene transfer and parallel evolution in the history of glutathione biosynthesis genes

S. Copley, Jasvinder K Dhillon, 2002, Genome Biology.