(Q41791228)

10 October 2017

Molecular dynamics studies of a DNA-binding protein: 1. A comparison of the trp repressor and trp aporepressor aqueous simulations (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

11 September 2022

Molecular dynamics studies of a DNA‐binding protein: 1. A comparison of the trp repressor and trp aporepressor aqueous simulations (English)

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

Escherichia coli proteins

28 November 2023

main subject

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

protein secondary structure

11 September 2022

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

11 September 2022

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

28 November 2023

author name string

A. E. Howard

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

11 September 2022

P. A. Kollman

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

11 September 2022

language of work or name

1 reference

1 September 1992

1 reference

PMCID

2142174

full work available at URL

10 October 2017

https://europepmc.org/articles/PMC2142174

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

https://europepmc.org/articles/PMC2142174?pdf=render

11 September 2022

file format

Portable Document Format

online access status

open access

content deliverer

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

https://europepmc.org/articles/pmc2142174?pdf=render

11 September 2022

file format

Portable Document Format

online access status

open access

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A1304395

https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1002%2Fpro.5560010911

28 November 2023

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

https://onlinelibrary.wiley.com/doi/pdf/10.1002/pro.5560010911

28 November 2023

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

28 November 2023

1 reference

10 October 2017

1

1 reference

10 October 2017

9

1 reference

10 October 2017

1173-1184

1 reference

Nucleotide sequence and expression of Escherichia coli trpR, the structural gene for the trp aporepressor

10 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

The three-dimensional structure of trp repressor.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

The crystal structure of trp aporepressor at 1.8 A shows how binding tryptophan enhances DNA affinity

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Crystal structure of trp repressor/operator complex at atomic resolution

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Flexibility of the DNA-binding domains of trp repressor

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

The structure of trp pseudorepressor at 1.65A shows why indole propionate acts as a trp 'inducer'.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

trp repressor interactions with the trp aroH and trpR operators. Comparison of repressor binding in vitro and repression in vivo

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Mechanisms of cooperativity and allosteric regulation in proteins

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

NMR assignments for the amino-terminal residues of trp repressor and their role in DNA binding

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Stereochemical effects of L-tryptophan and its analogues on trp repressor's affinity for operator-DNA.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

trp repressor arms contribute binding energy without occupying unique locations on DNA.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Accurate simulation of protein dynamics in solution

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Structure of yeast triosephosphate isomerase at 1.9-A resolution

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Molecular dynamics simulation of trp-aporepressor in a solvent.

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Molecular dynamics studies of a DNA‐binding protein: 2. An evaluation of implicit and explicit solvent models for the molecular dynamics simulation of the Escherichia coli trp repressor

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

The Protein Data Bank: a computer-based archival file for macromolecular structures

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Structure and regulation of aroH, the structural gene for the tryptophan-repressible 3-deoxy-d-arabino-heptulosonic acid-7-phosphate synthetase of Escherichia coli

6 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2142174

Regulation of in vitro Transcription of the Tryptophan Operon by Purified RNA Polymerase in the Presence of Partially Purified Repressor and Tryptophan

18 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/1304395

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Functional inferences from crystals of Escherichia coli trp repressor

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/1304395

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Sequence-specific 1H NMR assignments and secondary structure in solution of Escherichia coli trp repressor

3

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

Molecular dynamics with coupling to an external bath

28 November 2023

5

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

IUPAC-IUB Commission on Biochemical Nomenclature. Abbreviations and symbols for the description of the conformation of polypeptide chains. Tentative rules (1969)

28 November 2023

12

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

Comparison of simple potential functions for simulating liquid water

28 November 2023

15

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

Crystallographic analysis of the complex between triosephosphate isomerase and 2-phosphoglycolate at 2.5-A resolution: implications for catalysis

28 November 2023

22

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

28 November 2023

27

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

A new force field for molecular mechanical simulation of nucleic acids and proteins

28 November 2023

32

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

An all atom force field for simulations of proteins and nucleic acids

28 November 2023

33

1 reference

https://api.crossref.org/works/10.1002/PRO.5560010911

28 November 2023

Identifiers

1 reference

10 October 2017

1 reference

10 October 2017

1 reference

PMCID

2142174