New tools provide a second look at HDV ribozyme structure, dynamics and cleavage (Q34489793)

2 August 2017

title

New tools provide a second look at HDV ribozyme structure, dynamics and cleavage (English)

1 reference

2 August 2017

0 references

Jane Shelby Richardson

series ordinal

6

object named as

Jane S Richardson

0 references

Jennifer Doudna

series ordinal

4

object named as

Jennifer A Doudna

1 reference

2 August 2017

5

David C Richardson

1 reference

2 August 2017

1

Gary J Kapral

1 reference

2 August 2017

Swati Jain

2

1 reference

2 August 2017

Jonas Noeske

series ordinal

3

1 reference

2 August 2017

language of work or name

English

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publication date

17 October 2014

1 reference

2 August 2017

number of pages

14

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published in

Nucleic Acids Research

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2 August 2017

volume

42

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2 August 2017

issue

20

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2 August 2017

page(s)

12833-12846

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Creative Commons Attribution 4.0 International

2 August 2017

copyright license

start time

3 May 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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6 July 2018

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6 July 2018

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6 July 2018

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Characterization of the trans Watson-Crick GU base pair located in the catalytic core of the antigenomic HDV ribozyme

6 July 2018

1 reference

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Characterization of the Structure and Dynamics of the HDV Ribozyme at Different Stages Along the Reaction Path

6 July 2018

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6 July 2018

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HDV-like self-cleaving ribozymes

6 July 2018

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Small Self-cleaving Ribozymes

6 July 2018

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A 1.9 A crystal structure of the HDV ribozyme precleavage suggests both Lewis acid and general acid mechanisms contribute to phosphodiester cleavage

6 July 2018

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6 July 2018

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Widespread occurrence of self-cleaving ribozymes

6 July 2018

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6 July 2018

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CPEB3 is associated with human episodic memory.

6 July 2018

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Solvent Structure and Hammerhead Ribozyme Catalysis

6 July 2018

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6 July 2018

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MolProbity: all-atom contacts and structure validation for proteins and nucleic acids

6 July 2018

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A genomewide search for ribozymes reveals an HDV-like sequence in the human CPEB3 gene

6 July 2018

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Chemical rescue, multiple ionizable groups, and general acid-base catalysis in the HDV genomic ribozyme

6 July 2018

1 reference

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The backrub motion: how protein backbone shrugs when a sidechain dances

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

RNA backbone is rotameric

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

The penultimate rotamer library

6 July 2018

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General acid-base catalysis in the mechanism of a hepatitis delta virus ribozyme

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Crystal structure of a hepatitis delta virus ribozyme

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Core sequences and a cleavage site wobble pair required for HDV antigenomic ribozyme self-cleavage

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Crystal structure at 1.92 A resolution of the RNA-binding domain of the U1A spliceosomal protein complexed with an RNA hairpin

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Identification of phosphate oxygens that are important for self-cleavage activity of the HDV ribozyme by phosphorothioate substitution interference analysis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Characterization of self-cleaving RNA sequences on the genome and antigenome of human hepatitis delta virus

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Human hepatitis delta virus RNA subfragments contain an autocleavage activity

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Antigenomic RNA of human hepatitis delta virus can undergo self-cleavage.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4227795

Metal binding motif in the active site of the HDV ribozyme binds divalent and monovalent ions

6 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

A three-dimensional model of hepatitis delta virus ribozyme based on biochemical and mutational analyses

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

Imidazole rescue of a cytosine mutation in a self-cleaving ribozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

A conformational switch controls hepatitis delta virus ribozyme catalysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

General base catalysis for cleavage by the active-site cytosine of the hepatitis delta virus ribozyme: QM/MM calculations establish chemical feasibility

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

General acid catalysis by the hepatitis delta virus ribozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

RNABC: forward kinematics to reduce all-atom steric clashes in RNA backbone

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

Cleavage reaction of HDV ribozymes in the presence of Mg2+ is accompanied by a conformational change

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKU992

Involvement of a cytosine side chain in proton transfer in the rate-determining step of ribozyme self-cleavage

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25326328

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Systematic substitution of individual bases in two important single-stranded regions of the HDV ribozyme for evaluation of the role of specific bases

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25326328

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The penultimate rotamer library

1 reference

9 October 2022

https://opencitations.net/index/coci/api/v1/references/10.1093/NAR/GKU992

Identifiers

DOI

10.1093/NAR/GKU992

1 reference

2 August 2017

1 reference

2 August 2017

1 reference