A study of communication pathways in methionyl- tRNA synthetase by molecular dynamics simulations and structure network analysis (Q36023760)

11 August 2017

A study of communication pathways in methionyl- tRNA synthetase by molecular dynamics simulations and structure network analysis (English)

1 reference

11 August 2017

Saraswathi Vishveshwara

series ordinal

2

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author name string

Amit Ghosh

series ordinal

1

1 reference

PMCID

2000407

11 August 2017

language of work or name

English

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publication date

26 September 2007

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Proceedings of the National Academy of Sciences of the United States of America

11 August 2017

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11 August 2017

104

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11 August 2017

40

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11 August 2017

15711-15716

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PMCID

2000407

describes a project that uses

11 August 2017

molecular dynamics simulation

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Structure networks of E. coli glutaminyl-tRNA synthetase: effects of ligand binding.

inferred from title

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Dynamics of lysozyme structure network: probing the process of unfolding

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

A study of collective atomic fluctuations and cooperativity in the U1A-RNA complex based on molecular dynamics simulations

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Editing-defective tRNA synthetase causes protein misfolding and neurodegeneration

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Oligomeric protein structure networks: insights into protein-protein interactions

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

A network representation of protein structures: implications for protein stability.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Use of analogues of methionine and methionyl adenylate to sample conformational changes during catalysis in Escherichia coli methionyl-tRNA synthetase

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Domain-domain communication in aminoacyl-tRNA synthetases

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Structural basis for anticodon recognition by discriminating glutamyl-tRNA synthetase

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

The free yeast aspartyl-tRNA synthetase differs from the tRNA(Asp)-complexed enzyme by structural changes in the catalytic site, hinge region, and anticodon-binding domain

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Crystal structure of Escherichia coli methionyl-tRNA synthetase highlights species-specific features

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Identification of side-chain clusters in protein structures by a graph spectral method.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Crystal structure of methionyl-tRNAfMet transformylase complexed with the initiator formyl-methionyl-tRNAfMet.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Selection of suppressor methionyl-tRNA synthetases: mapping the tRNA anticodon binding site

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Arginine-395 is required for efficient in vivo and in vitro aminoacylation of tRNAs by Escherichia coli methionyl-tRNA synthetase

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Evidence for breaking domain-domain functional communication in a synthetase-tRNA complex

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Two separate peptides in Escherichia coli methionyl-tRNA synthetase form the anticodon binding site for methionine tRNA.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

tRNA recognition site of Escherichia coli methionyl-tRNA synthetase.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Identification of the tRNA anticodon recognition site of Escherichia coli methionyl-tRNA synthetase.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Assembly of a class I tRNA synthetase from products of an artificially split gene.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Do collective atomic fluctuations account for cooperative effects? Molecular dynamics studies of the U1A-RNA complex

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Structural basis for anticodon recognition by methionyl-tRNA synthetase.

23 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Domain-domain communication for tRNA aminoacylation: the importance of covalent connectivity

23 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Two acidic residues of Escherichia coli methionyl-tRNA synthetase act as negative discriminants towards the binding of non-cognate tRNA anticodons.

23 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Connecting anticodon recognition with the active site of Escherichia coli glutaminyl-tRNA synthetase.

23 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2000407

Binding of the anticodon domain of tRNA(fMet) to Escherichia coli methionyl-tRNA synthetase

23 September 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17898174

12 December 2020

inferred from PubMed ID database lookup

RNA recognition by the human U1A protein is mediated by a network of local cooperative interactions that create the optimal binding surface

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17898174

12 December 2020

inferred from PubMed ID database lookup

A modified version of the Cornell et al. force field with improved sugar pucker phases and helical repeat

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17898174

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1073/PNAS.0704459104

1 reference

11 August 2017

0 references

1 reference

11 August 2017

1 reference

PMCID

2000407