Comparing aminoglycoside binding sites in bacterial ribosomal RNA and aminoglycoside modifying enzymes (Q30558517)

24 June 2017

Comparing aminoglycoside binding sites in bacterial ribosomal RNA and aminoglycoside modifying enzymes (English)

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24 June 2017

3

Joanna Trylska

1 reference

24 June 2017

Julia Romanowska

1

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Nathalie Reuter

object named as

Nathalie Reuter

series ordinal

2

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language of work or name

English

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publication date

26 September 2012

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24 June 2017

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24 June 2017

81

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24 June 2017

1

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24 June 2017

63-80

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Do we still need the aminoglycosides?

24 June 2017

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https://api.crossref.org/works/10.1002%2FPROT.24163

The future of aminoglycosides: the end or renaissance?

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Best drug treatment for multidrug-resistant and extensively drug-resistant tuberculosis

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Molecular insights into aminoglycoside action and resistance

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Two nucleotide substitutions in the A-site of yeast 18S rRNA affect translation and differentiate the interaction of ribosomes with aminoglycoside antibiotics

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Thermodynamics of aminoglycoside-rRNA recognition: the binding of neomycin-class aminoglycosides to the A site of 16S rRNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

16S ribosomal RNA methylation: emerging resistance mechanism against aminoglycosides

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Effects of mutagenesis of a conserved base-paired site near the decoding region of Escherichia coli 16 S ribosomal RNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Nonsense suppressor and antisuppressor mutations at the 1409-1491 base pair in the decoding region of Escherichia coli 16S rRNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A genetic model to investigate drug-target interactions at the ribosomal decoding site

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Effect of mutations in the A site of 16 S rRNA on aminoglycoside antibiotic-ribosome interaction.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

The Molecular Basis for A‐Site Mutations Conferring Aminoglycoside Resistance: Relationship between Ribosomal Susceptibility and X‐ray Crystal Structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A molecular dynamics simulation study of an aminoglycoside/A-site RNA complex: conformational and hydration patterns

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Molecular dynamics study of the ribosomal A-site.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A molecular dynamics study on binding recognition between several 4,5 and 4,6-linked aminoglycosides with A-site RNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Understanding the origins of bacterial resistance to aminoglycosides through molecular dynamics mutational study of the ribosomal A-site

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Aminoglycoside modifying enzymes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Aminoglycosides modified by resistance enzymes display diminished binding to the bacterial ribosomal aminoacyl-tRNA site

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Structure and functions of the GNAT superfamily of acetyltransferases

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Aminoglycoside antibiotic phosphotransferases are also serine protein kinases

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Mechanistic and Structural Analysis of Aminoglycoside N -Acetyltransferase AAC(6′)-Ib and Its Bifunctional, Fluoroquinolone-Active AAC(6′)-Ib-cr Variant † ‡

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Effects of altering aminoglycoside structures on bacterial resistance enzyme activities

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Genetic analysis of bacterial acetyltransferases: identification of amino acids determining the specificities of the aminoglycoside 6'-N-acetyltransferase Ib and IIa proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Systematic analysis of a conserved region of the aminoglycoside 6'-N-acetyltransferase type Ib.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Salmonella enterica serovar Typhimurium bla(PER-1)-carrying plasmid pSTI1 encodes an extended-spectrum aminoglycoside 6'-N-acetyltransferase of type Ib.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Mutagenesis analysis of a conserved region involved in acetyl coenzyme A binding in the aminoglycoside 6'-N-acetyltransferase type Ib encoded by plasmid pJHCMW1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

X-ray structure of the AAC(6')-Ii antibiotic resistance enzyme at 1.8 A resolution; examination of oligomeric arrangements in GNAT superfamily members

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Deciphering interactions of the aminoglycoside phosphotransferase(3')-IIIa with its ligands.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Molecular mechanism of aminoglycoside antibiotic kinase APH(3')-IIIa: roles of conserved active site residues

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Mechanism of aminoglycoside antibiotic kinase APH(3')-IIIa: role of the nucleotide positioning loop

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Structural analyses of nucleotide binding to an aminoglycoside phosphotransferase

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Substrate promiscuity of an aminoglycoside antibiotic resistance enzyme via target mimicry

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

NMR detected hydrogen-deuterium exchange reveals differential dynamics of antibiotic- and nucleotide-bound aminoglycoside phosphotransferase 3'-IIIa.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Molecular structure of kanamycin nucleotidyltransferase determined to 3.0-A resolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

NMR-based analysis of aminoglycoside recognition by the resistance enzyme ANT(4'): the pattern of OH/NH3(+) substitution determines the preferred antibiotic binding mode and is critical for drug inactivation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Structural investigation of the antibiotic and ATP-binding sites in kanamycin nucleotidyltransferase

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Molecular recognition of aminoglycoside antibiotics by ribosomal RNA and resistance enzymes: an analysis of x-ray crystal structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Conformations of antibiotics in active sites of aminoglycoside-detoxifying enzymes

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Exploring the use of conformationally locked aminoglycosides as a new strategy to overcome bacterial resistance

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Investigations on domain movements of N-acetyltransferase in nano scale.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Coenzyme A binding to the aminoglycoside acetyltransferase (3)-IIIb increases conformational sampling of antibiotic binding site.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A bacterial acetyltransferase capable of regioselective N-acetylation of antibiotics and histones

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Crystal structures of complexes between aminoglycosides and decoding A site oligonucleotides: role of the number of rings and positive charges in the specific binding leading to miscoding

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

The crystal structure of aminoglycoside-3'-phosphotransferase-IIa, an enzyme responsible for antibiotic resistance

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Very fast empirical prediction and rationalization of protein pKa values

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Molecular determinants of the pKa values of Asp and Glu residues in staphylococcal nuclease

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Comparison of simple potential functions for simulating liquid water

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Distinguish protein decoys by using a scoring function based on a new AMBER force field, short molecular dynamics simulations, and the generalized born solvent model

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Development and testing of a general amber force field

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

The pattern of distribution of amino groups modulates the structure and dynamics of natural aminoglycosides: implications for RNA recognition.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Scalable molecular dynamics with NAMD

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Effective Born radii in the generalized Born approximation: the importance of being perfect

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Protein-protein recognition and interaction hot spots in an antigen-antibody complex: free energy decomposition identifies "efficient amino acids".

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Electrostatics of nanosystems: application to microtubules and the ribosome

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Electrostatic similarity of proteins: application of three dimensional spherical harmonic decomposition

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

VMD: visual molecular dynamics

21 January 2018

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https://api.crossref.org/works/10.1002%2FPROT.24163

Determining Geometrically Stable Domains in Molecular Conformation Sets.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Ras conformational switching: simulating nucleotide-dependent conformational transitions with accelerated molecular dynamics

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Bio3d: an R package for the comparative analysis of protein structures.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A new method to detect related function among proteins independent of sequence and fold homology.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Crystal structure of paromomycin docked into the eubacterial ribosomal decoding A site

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Analysis of the pi-pi stacking interactions between the aminoglycoside antibiotic kinase APH(3')-IIIa and its nucleotide ligands

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Structure and Function of APH(4)-Ia, a Hygromycin B Resistance Enzyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Antibody multispecificity mediated by conformational diversity

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A Comparative Study for Molecular Dynamics Simulations of Liquid Benzene

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Role of aromatic rings in the molecular recognition of aminoglycoside antibiotics: implications for drug design.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

A simple structural-based approach to prevent aminoglycoside inactivation by bacterial defense proteins. Conformational restriction provides effective protection against neomycin-B nucleotidylation by ANT4.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Multiple keys for a single lock: the unusual structural plasticity of the nucleotidyltransferase (4')/kanamycin complex

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Structure-based design, synthesis and A-site rRNA co-crystal complexes of novel amphiphilic aminoglycoside antibiotics with new binding modes: a synergistic hydrophobic effect against resistant bacteria

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Inhibition of aminoglycoside-deactivating enzymes APH(3')-IIIa and AAC(6')-Ii by amphiphilic paromomycin O2''-ether analogues

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Insights into protein-protein binding by binding free energy calculation and free energy decomposition for the Ras-Raf and Ras-RalGDS complexes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Decomposing the energetic impact of drug resistant mutations in HIV-1 protease on binding DRV.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Modifications of aminoglycoside antibiotics targeting RNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Assessment of 6'- and 6'''-N-acylation of aminoglycosides as a strategy to overcome bacterial resistance.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Crystal structure of the bacterial ribosomal decoding site complexed with a synthetic doubly functionalized paromomycin derivative: a new specific binding mode to an a-minor motif enhances in vitro antibacterial activity

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Synthesis and antimicrobial evaluation of amphiphilic neamine derivatives

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Combating evolution with intelligent design: the neoglycoside ACHN-490.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Design, synthesis, and evaluation of novel fluoroquinolone-aminoglycoside hybrid antibiotics

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Aminoglycoside-modifying enzymes: mechanisms of catalytic processes and inhibition

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Broad-spectrum peptide inhibitors of aminoglycoside antibiotic resistance enzymes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Crystal Structures of Two Aminoglycoside Kinases Bound with a Eukaryotic Protein Kinase Inhibitor

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

Performance of Molecular Mechanics Force Fields for RNA Simulations: Stability of UUCG and GNRA Hairpins

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FPROT.24163

21 January 2018

Identifiers

DOI

10.1002/PROT.24163

1 reference

release_nv67zketgbg7dcto6j6oy4btsa

24 June 2017

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/nv67zketgbg7dcto6j6oy4btsa

mapped directly with Wikidata item

24 November 2022

based on heuristic

PubMed ID

22907688

1 reference

PubMed ID

22907688