(Q28363742)

5 July 2017

title

Protein folding and function: the N-terminal fragment in adenylate kinase (English)

1 reference

5 July 2017

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4

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Ruth Nussinov

series ordinal

4

object named as

R Nussinov

1 reference

5 July 2017

S Kumar

1

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5 July 2017

Y Y Sham

series ordinal

2

1 reference

5 July 2017

C J Tsai

series ordinal

3

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5 July 2017

language of work or name

English

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publication date

1 May 2001

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5 July 2017

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5 July 2017

volume

80

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5 July 2017

issue

5

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5 July 2017

page(s)

2439-2454

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Molecular dynamics simulation of Escherichia coli dihydrofolate reductase and its protein fragments: relative stabilities in experiment and simulations

5 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Discrimination of the native from misfolded protein models with an energy function including implicit solvation

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Effective energy function for proteins in solution

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

The structure of a trimeric archaeal adenylate kinase

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Crystal structures of Bacillus stearothermophilus adenylate kinase with bound Ap5A, Mg2+ Ap5A, and Mn2+ Ap5A reveal an intermediate lid position and six coordinate octahedral geometry for bound Mg2+ and Mn2+

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Hydrophobic folding units derived from dissimilar monomer structures and their interactions

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Adenylate kinase motions during catalysis: an energetic counterweight balancing substrate binding

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Structure of a mutant adenylate kinase ligated with an ATP-analogue showing domain closure over ATP

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Crystal structures of two mutants of adenylate kinase from Escherichia coli that modify the Gly-loop

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

The closed conformation of a highly flexible protein: the structure of E. coli adenylate kinase with bound AMP and AMPPNP

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Mechanism of adenylate kinase. The "essential lysine" helps to orient the phosphates and the active site residues to proper conformations

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

The glycine-rich loop of adenylate kinase forms a giant anion hole

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Refined structure of porcine cytosolic adenylate kinase at 2.1 A resolution

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

The P-loop--a common motif in ATP- and GTP-binding proteins

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Structure of the complex between adenylate kinase from Escherichia coli and the inhibitor Ap5A refined at 1.9 A resolution. A model for a catalytic transition state

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

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

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Binding and folding: in search of intramolecular chaperone-like building block fragments.

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Anatomy of protein structures: visualizing how a one-dimensional protein chain folds into a three-dimensional shape

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Limited proteolysis of bovine alpha-lactalbumin: isolation and characterization of protein domains

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Distinguishing between sequential and nonsequentially folded proteins: implications for folding and misfolding

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Folding funnels, binding funnels, and protein function

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Nucleoside monophosphate kinases: structure, mechanism, and substrate specificity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Is protein folding hierarchic? I. Local structure and peptide folding

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

How do kinases transfer phosphoryl groups?

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Structural and genetic analysis of protein stability

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Autonomous subdomains in protein folding

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Origins of structure in globular proteins

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Protein folding via binding and vice versa

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Probing minimal independent folding units in dihydrofolate reductase by molecular dissection

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Hydrophobic folding units at protein-protein interfaces: implications to protein folding and to protein-protein association

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Structural basis for thermostability and identification of potential active site residues for adenylate kinases from the archaeal genus Methanococcus.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Study of global motions in proteins by weighted masses molecular dynamics: adenylate kinase as a test case.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

High-resolution structures of adenylate kinase from yeast ligated with inhibitor Ap5A, showing the pathway of phosphoryl transfer

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Mutations in the nucleotide binding loop of adenylate kinase of Escherichia coli

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

The role of internal packing interactions in determining the structure and stability of a protein

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Structurally and catalytically important residues in the phosphate binding loop of adenylate kinase of Escherichia coli.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Polar hydrogen positions in proteins: Empirical energy placement and neutron diffraction comparison

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Structural and catalytic characteristics of Escherichia coli adenylate kinase.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

Structural and energetic consequences of disruptive mutations in a protein core

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1301432

CHARMM: A program for macromolecular energy, minimization, and dynamics calculations

27 November 2018

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2801%2976213-3

Domain closure in adenylate kinase. Joints on either side of two helices close like neighboring fingers

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2801%2976213-3

Nucleotide-binding properties of adenylate kinase from Escherichia coli: a molecular dynamics study in aqueous and vacuum environments

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2801%2976213-3

Induced-fit movements in adenylate kinases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2801%2976213-3

Site-directed mutagenesis of Gly-15 and Gly-20 in the glycine-rich region of adenylate kinase

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2801%2976213-3

Structural and catalytic properties of a deletion derivative (delta 133-157) of Escherichia coli adenylate kinase

7 January 2021

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/11325743

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/S0006-3495(01)76213-3

1 reference

5 July 2017

1 reference

5 July 2017

1 reference