Diminishing returns and tradeoffs constrain the laboratory optimization of an enzyme (Q27683542)

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English	Diminishing returns and tradeoffs constrain the laboratory optimization of an enzyme	scientific article

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instance of

scholarly article

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title

Diminishing returns and tradeoffs constrain the laboratory optimization of an enzyme (English)

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main subject

laboratory

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corrigendum / erratum

Erratum: Diminishing returns and tradeoffs constrain the laboratory optimization of an enzyme

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author

Colin Jackson

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2

object named as

Colin J Jackson

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author name string

Nobuhiko Tokuriki

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1

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Livnat Afriat-Jurnou

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3

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Kirsten T Wyganowski

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4

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Renmei Tang

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5

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Dan S Tawfik

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6

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language of work or name

English

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publication date

2012

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published in

Nature Communications

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volume

3

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page(s)

1257

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cites work

Structural and mutational studies of organophosphorus hydrolase reveal a cryptic and functional allosteric-binding site

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Anomalous scattering analysis of Agrobacterium radiobacter phosphotriesterase: the prominent role of iron in the heterobinuclear active site

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Directed evolution of phosphotriesterase from Pseudomonas diminuta for heterologous expression in Escherichia coli results in stabilization of the metal-free state.

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Functional plasticity of paralogous diterpene synthases involved in conifer defense

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Shared promiscuous activities and evolutionary features in various members of the amidohydrolase superfamily.

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Tradeoffs and optimality in the evolution of gene regulation.

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12 December 2020

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The rise of chemodiversity in plants

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Scaling and assessment of data quality

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Limits of adaptation: the evolution of selective neutrality

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The evolution of trade-offs: where are we?

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12 December 2020

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Characterization of CYP76M5-8 indicates metabolic plasticity within a plant biosynthetic gene cluster

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PubMed

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In search of the limits of evolution

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PubMed

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12 December 2020

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Exploring protein fitness landscapes by directed evolution

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PubMed

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12 December 2020

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How enzymes adapt: lessons from directed evolution

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Three-dimensional structure of the zinc-containing phosphotriesterase with the bound substrate analog diethyl 4-methylbenzylphosphonate

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

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Network context and selection in the evolution to enzyme specificity.

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PubMed

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12 December 2020

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Stability for function trade-offs in the enolase superfamily "catalytic module"

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Self-assembly of the binuclear metal center of phosphotriesterase

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Engineering specialized metabolic pathways--is there a room for enzyme improvements?

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Protein engineers turned evolutionists

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Simple method for selecting catalytic monoclonal antibodies that exhibit turnover and specificity

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Effects of a distal mutation on active site chemistry

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Diminishing returns epistasis among beneficial mutations decelerates adaptation

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Diminishing returns of population size in the rate of RNA virus adaptation

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Negative epistasis between beneficial mutations in an evolving bacterial population

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Directed enzyme evolution: climbing fitness peaks one amino acid at a time

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Limits of diffusion in the hydrolysis of substrates by the phosphotriesterase from Pseudomonas diminuta.

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The moderately efficient enzyme: evolutionary and physicochemical trends shaping enzyme parameters

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Protein dynamism and evolvability.

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

How protein stability and new functions trade off

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Conformational sampling, catalysis, and evolution of the bacterial phosphotriesterase

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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PHENIX: a comprehensive Python-based system for macromolecular structure solution

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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The neutral theory of molecular evolution and the world view of the neutralists

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

stated in

Crossref

reference URL

https://api.crossref.org/works/10.1038%2FNCOMMS2246

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7 January 2021

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inferred from DOI database lookup

THE LAW OF DIMINISHING RETURNS

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

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Chaperonin overexpression promotes genetic variation and enzyme evolution

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Minimalist active-site redesign: teaching old enzymes new tricks

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Quantitative exploration of the catalytic landscape separating divergent plant sesquiterpene synthases

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

What makes an enzyme promiscuous?

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Characterization of the zinc binding site of bacterial phosphotriesterase

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The 'evolvability' of promiscuous protein functions

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Diminishing Returns From Beneficial Mutations and Pervasive Epistasis Shape the Fitness Landscape for Rifampicin Resistance in Pseudomonas aeruginosa

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

In the light of directed evolution: pathways of adaptive protein evolution

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Stability effects of mutations and protein evolvability

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

In crystallo capture of a Michaelis complex and product-binding modes of a bacterial phosphotriesterase

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Diminishing Returns from Mutation Supply Rate in Asexual Populations

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Optimization of the In-Silico-Designed Kemp Eliminase KE70 by Computational Design and Directed Evolution

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Strategy and success for the directed evolution of enzymes

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mechanism for the hydrolysis of organophosphates by the bacterial phosphotriesterase

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Coot: model-building tools for molecular graphics

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Improving enzyme properties: when are closer mutations better?

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Enzyme promiscuity: a mechanistic and evolutionary perspective

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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Near neutrality: leading edge of the neutral theory of molecular evolution

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/23212386

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12 December 2020

based on heuristic

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XDS

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evolutionary history of a specialized p450 propane monooxygenase

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The binding of substrate analogs to phosphotriesterase

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/23212386

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Catalytic promiscuity and the evolution of new enzymatic activities

1 reference

stated in

Crossref

reference URL

https://api.crossref.org/works/10.1038%2FNCOMMS2246

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7 January 2021

based on heuristic

inferred from DOI database lookup

Identifiers

DOI

10.1038/NCOMMS2246

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

3092534

ADS bibcode

2012NatCo...3.1257T

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Dimensions Publication ID

1030484869

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OpenCitations bibliographic resource ID

3092534

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

3092534

PubMed publication ID

23212386

1 reference

stated in

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

3092534

ResearchGate publication ID

233849198

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