(Q33891801)

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Existence of efficient divalent metal ion-catalyzed and inefficient divalent metal ion-independent channels in reactions catalyzed by a hammerhead ribozyme

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scholarly article

1 reference

Europe PubMed Central

29 July 2017

Existence of efficient divalent metal ion-catalyzed and inefficient divalent metal ion-independent channels in reactions catalyzed by a hammerhead ribozyme (English)

1 reference

Europe PubMed Central

29 July 2017

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7

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Kazunari Taira

1 reference

Europe PubMed Central

29 July 2017

author name string

Jing-Min Zhou

1

1 reference

Europe PubMed Central

29 July 2017

De-Min Zhou

2

1 reference

Europe PubMed Central

29 July 2017

Yasuomi Takagi

3

1 reference

Europe PubMed Central

29 July 2017

Yasuhiro Kasai

4

1 reference

Europe PubMed Central

29 July 2017

Atsushi Inoue

5

1 reference

Europe PubMed Central

29 July 2017

Tadashi Baba

6

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Europe PubMed Central

29 July 2017

language of work or name

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publication date

1 June 2002

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Europe PubMed Central

29 July 2017

Nucleic Acids Research

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Europe PubMed Central

29 July 2017

30

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Europe PubMed Central

29 July 2017

11

1 reference

Europe PubMed Central

29 July 2017

2374-2382

1 reference

Europe PubMed Central

29 July 2017

The hammerhead cleavage reaction in monovalent cations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Comparison of the hammerhead cleavage reactions stimulated by monovalent and divalent cations.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Dissection of the ion-induced folding of the hammerhead ribozyme using 19F NMR.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Recent advances in the elucidation of the mechanisms of action of ribozymes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Ribozyme structures and mechanisms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Structural biology. The ribosome is a ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

The structural basis of ribosome activity in peptide bond synthesis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

A further investigation and reappraisal of the thio effect in the cleavage reaction catalyzed by a hammerhead ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Structure and function of the hairpin ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Does a single metal ion bridge the A-9 and scissile phosphate groups in the catalytically active hammerhead ribozyme structure?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Identification and characterization of a novel high affinity metal-binding site in the hammerhead ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

RNA folding and misfolding of the hammerhead ribozyme.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Electron paramagnetic resonance spectroscopic measurement of Mn2+ binding affinities to the hammerhead ribozyme and correlation with cleavage activity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Hairpin ribozyme cleavage catalyzed by aminoglycoside antibiotics and the polyamine spermine in the absence of metal ions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

The hammerhead, hairpin and VS ribozymes are catalytically proficient in monovalent cations alone

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Crystal structure of a hepatitis delta virus ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

A core folding model for catalysis by the hammerhead ribozyme accounts for its extraordinary sensitivity to abasic mutations.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Molecular dynamics study displays near in-line attack conformations in the hammerhead ribozyme self-cleavage reaction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Crystallographic structures of the hammerhead ribozyme: relationship to ribozyme folding and catalysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

A two-metal ion mechanism operates in the hammerhead ribozyme-mediated cleavage of an RNA substrate

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Explanation by the double-metal-ion mechanism of catalysis for the differential metal ion effects on the cleavage rates of 5'-oxy and 5'-thio substrates by a hammerhead ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Ion-induced folding of the hammerhead ribozyme: a fluorescence resonance energy transfer study

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Metal ions play a passive role in the hairpin ribozyme catalysed reaction

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Observations on catalysis by hammerhead ribozymes are consistent with a two-divalent-metal-ion mechanism

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Complete identification of nonbridging phosphate oxygens involved in hammerhead cleavage

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Capturing the structure of a catalytic RNA intermediate: the hammerhead ribozyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Rescue of abasic hammerhead ribozymes by exogenous addition of specific bases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Structure and function of the hammerhead ribozyme: an unfinished story

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Theoretical analyses on the role of Mg2+ ions in ribozyme reactions.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

A general two-metal-ion mechanism for catalytic RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Ribozymes: a distinct class of metalloenzymes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Enhancement of the cleavage rates of DNA-armed hammerhead ribozymes by various divalent metal ions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

A comparison of the in vitro activity of DNA-armed and all-RNA hammerhead ribozymes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

In vitro splicing of the ribosomal RNA precursor of Tetrahymena: involvement of a guanosine nucleotide in the excision of the intervening sequence

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Self-cleavage of plus and minus RNA transcripts of avocado sunblotch viroid

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Design of RNA enzymes distinguishing a single base mutation in RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Unusual resistance of peptidyl transferase to protein extraction procedures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

5 July 2018

Identification of the metal ion binding site on an RNA motif from hammerhead ribozymes using (15)N NMR spectroscopy

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

Mechanistic characterization of the HDV genomic ribozyme: assessing the catalytic and structural contributions of divalent metal ions within a multichannel reaction mechanism

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

Ribosomal peptidyl transferase can withstand mutations at the putative catalytic nucleotide

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

Identification of the hammerhead ribozyme metal ion binding site responsible for rescue of the deleterious effect of a cleavage site phosphorothioate

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

Involvement of a specific metal ion in the transition of the hammerhead ribozyme to its catalytic conformation.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

Simple RNA enzymes with new and highly specific endoribonuclease activities

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=117202

29 October 2018

A unique mechanism for RNA catalysis: the role of metal cofactors in hairpin ribozyme cleavage

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A single adenosine with a neutral pKa in the ribosomal peptidyl transferase center

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mg(2+)-dependent conformational changes in the hammerhead ribozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mechanisms of Ribozyme-Mediated RNA Cleavage

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Significant change in the structure of a ribozyme upon introduction of a phosphorothioate linkage at P9: NMR reveals a conformational fluctuation in the core region of a hammerhead ribozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

An unusual pH-independent and metal-ion-independent mechanism for hairpin ribozyme catalysis

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Magnesium-mediated conversion of an inactive form of a hammerhead ribozyme to an active complex with its substrate. An investigation by NMR spectroscopy

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Metal-phosphate interactions in the hammerhead ribozyme observed by 31P NMR and phosphorothioate substitutions

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Significant activity of a modified ribozyme with N7-deazaguanine at g10.1: the double-metal-ion mechanism of catalysis in reactions catalysed by hammerhead ribozymes

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Detection of a proton-transfer process by kinetic solvent isotope effects in NH(4)(+)-mediated reactions catalyzed by a hammerhead ribozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Probing the binding of Tb(III) and Eu(III) to the hammerhead ribozyme using luminescence spectroscopy

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The Hydrolysis of RNA: From Theoretical Calculations to the Hammerhead Ribozyme-Mediated Cleavage of RNA

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Ionic interactions and the global conformations of the hammerhead ribozyme

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Activities and relative affinities of divalent metals in unmodified and phosphorothioate-substituted hammerhead ribozymes

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evidence for the role of solvated metal hydroxide in the hammerhead cleavage mechanism

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A small catalytic oligoribonucleotide

1 reference

https://pubmed.ncbi.nlm.nih.gov/12034824

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/NAR/30.11.2374

1 reference

Europe PubMed Central

29 July 2017

1 reference

Europe PubMed Central

29 July 2017

1 reference

Europe PubMed Central

29 July 2017

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