(Q34986653)

5 August 2017

title

Emergence of robust growth laws from optimal regulation of ribosome synthesis (English)

1 reference

5 August 2017

4

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5 August 2017

Stefan Klumpp

2

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author name string

Matthew Scott

series ordinal

1

1 reference

5 August 2017

Eduard M Mateescu

series ordinal

3

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5 August 2017

publication date

22 August 2014

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Molecular Systems Biology

5 August 2017

published in

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5 August 2017

volume

10

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5 August 2017

page(s)

747

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Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources

5 August 2017

cites work

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Optimal control of gene expression for fast proteome adaptation to environmental change

8 July 2018

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Nitrogen assimilation in Escherichia coli: putting molecular data into a systems perspective

8 July 2018

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The innate growth bistability and fitness landscapes of antibiotic-resistant bacteria

8 July 2018

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What is the total number of protein molecules per cell volume? A call to rethink some published values

8 July 2018

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Molecular crowding limits translation and cell growth

8 July 2018

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Coordination of bacterial proteome with metabolism by cyclic AMP signalling.

8 July 2018

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Heterogeneity in protein expression induces metabolic variability in a modeled Escherichia coli population.

8 July 2018

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Functioning of a metabolic flux sensor in Escherichia coli.

8 July 2018

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From essential to persistent genes: a functional approach to constructing synthetic life.

8 July 2018

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EcoCyc: fusing model organism databases with systems biology

8 July 2018

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Need-based activation of ammonium uptake in Escherichia coli

8 July 2018

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A whole-cell computational model predicts phenotype from genotype

8 July 2018

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Bacterial growth laws and their applications

8 July 2018

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ppGpp is the major source of growth rate control in E. coli

8 July 2018

1 reference

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Bacterial adaptation through distributed sensing of metabolic fluxes

8 July 2018

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Growth rate-dependent global effects on gene expression in bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Nonoptimal microbial response to antibiotics underlies suppressive drug interactions

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Shifts in growth strategies reflect tradeoffs in cellular economics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

A coarse-grained biophysical model of E. coli and its application to perturbation of the rRNA operon copy number

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Fast, cheap and somewhat in control

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Recognition and selection of tRNA in translation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

rRNA transcription in Escherichia coli

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Post-transfer editing in vitro and in vivo by the beta subunit of phenylalanyl-tRNA synthetase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Near-critical behavior of aminoacyl-tRNA pools in E. coli at rate-limiting supply of amino acids

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Mechanisms of elongation on the ribosome: dynamics of a macromolecular machine

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Functional group recognition at the aminoacylation and editing sites of E. coli valyl-tRNA synthetase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

An engineered Escherichia coli tyrosyl-tRNA synthetase for site-specific incorporation of an unnatural amino acid into proteins in eukaryotic translation and its application in a wheat germ cell-free system

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Production and characterization of bifunctional enzymes. Domain swapping to produce new bifunctional enzymes in the aspartate pathway

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

BRENDA: a resource for enzyme data and metabolic information

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Zinc ion mediated amino acid discrimination by threonyl-tRNA synthetase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

From molecular to modular cell biology

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Fast recycling of Escherichia coli ribosomes requires both ribosome recycling factor (RRF) and release factor RF3

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Characterization of a thermosensitive Escherichia coli aspartyl-tRNA synthetase mutant.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Chemical modification and site-directed mutagenesis of the single cysteine in motif 3 of class II Escherichia coli prolyl-tRNA synthetase.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Control of rRNA transcription in Escherichia coli

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Seryl-tRNA synthetase from Escherichia coli: implication of its N-terminal domain in aminoacylation activity and specificity

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Independence of buoyant cell density and growth rate in Escherichia coli

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Regulation of the synthesis of ribosomes and ribosomal components

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Glutamate synthase from Escherichia coli. An iron-sulfide flavoprotein.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

The mechanism of end product inhibition of serine biosynthesis. I. Purification and kinetics of phosphoglycerate dehydrogenase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Structure-function relationship of arginyl-tRNA synthetase from Escherichia coli: isolation and characterization of the argS mutation MA5002.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Kinetic studies on chorismate mutase-prephenate dehydrogenase from Escherichia coli: models for the feedback inhibition of prephenate dehydrogenase by L-tyrosine.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Asparaginyl-tRNA synthetase from the Escherichia coli temperature-sensitive strain HO202. A proline replacement in motif 2 is responsible for a large increase in Km for asparagine and ATP

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Optimal design of feedback control by inhibition: dynamic considerations

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Growth inhibition as a consequence of antagonism between related amino acids: effect of valine in Escherichia coli K-12

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Patterns of protein synthesis in E. coli: a catalog of the amount of 140 individual proteins at different growth rates

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Regulation of aromatic amino acid transport systems in Escherichia coli K-12

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Purification and characterization of a mutant ATP phosphoribosyltransferase hypersensitive to histidine feedback inhibition

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Regulation of amino acid transport in Escherichia coli by transcription termination factor rho

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Chemical measurement of steady-state levels of ten aminoacyl-transfer ribonucleic acid synthetases in Escherichia coli

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Regulation of ribosomal protein synthesis in Escherichia coli by selective mRNA inactivation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Exploring the allosteric mechanism of dihydrodipicolinate synthase by reverse engineering of the allosteric inhibitor binding sites and its application for lysine production

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Interdependence of cell growth and gene expression: origins and consequences.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Five hard truths for synthetic biology

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Invariant distribution of promoter activities in Escherichia coli

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Comparative genome sequencing of Escherichia coli allows observation of bacterial evolution on a laboratory timescale

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

A bottom-up approach to gene regulation.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

An aminoacyl-tRNA synthetase with a defunct editing site.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Asymmetric allosteric activation of the symmetric ArgR hexamer

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Discrimination of cognate and noncognate substrates at the active site of class II lysyl-tRNA synthetase

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Dependency on medium and temperature of cell size and chemical composition during balanced grown of Salmonella typhimurium

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Control of rRNA expression by small molecules is dynamic and nonredundant

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

A dispensable peptide from Acidithiobacillus ferrooxidans tryptophanyl-tRNA synthetase affects tRNA binding.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Charging levels of four tRNA species in Escherichia coli Rel(+) and Rel(-) strains during amino acid starvation: a simple model for the effect of ppGpp on translational accuracy.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Isolation and analysis of mutated histidyl-tRNA synthetases from Escherichia coli

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Amino acid substitutions at position 73 in motif 2 of Escherichia coli alanyl-tRNA synthetase

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Integrated function of a kinetic proofreading mechanism: dynamic analysis separating the effects of speed and substrate competition on accuracy.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4299513

Feedback inhibition and repression of aspartokinase activity in Escherichia coli

26 October 2018

1 reference

12 December 2020

Multimetabolite Control of a Biosynthetic Pathway by Sequential Metabolites

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12 December 2020

Regulation of glutamine synthetase. 3. Cumulative feedback inhibition of glutamine synthetase from Escherichia coli

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12 December 2020

The asparagine synthetase of Escherichia coli. II. Studies on mechanism

1 reference

12 December 2020

Chorismate mutase-prephenate dehydratase from Escherichia coli K-12. II. Kinetic properties

1 reference

12 December 2020

A new method for the isolation of methionyl transfer RNA synthetase mutants from Escherichia coli

1 reference

12 December 2020

The glutaminyl-transfer RNA synthetase of Escherichia coli. Purification, structure and function relationship

1 reference

12 December 2020

Initiation factor and ribosome levels are coordinately controlled in Escherichia coli growing at different rates

1 reference

12 December 2020

Costs of accuracy determined by a maximal growth rate constraint

1 reference

12 December 2020

The identity determinants required for the discrimination between tRNAGlu and tRNAAsp by glutamyl-tRNA synthetase from Escherichia coli

1 reference

12 December 2020

Identifiers

DOI

10.15252/MSB.20145379

1 reference

5 August 2017

1 reference

5 August 2017

1 reference