Structure of a self-splicing group II intron catalytic effector domain 5: parallels with spliceosomal U6 RNA (Q28293038)

6 July 2017

title

Structure of a self-splicing group II intron catalytic effector domain 5: parallels with spliceosomal U6 RNA (English)

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6 July 2017

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Mahadevan Seetharaman

1

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6 July 2017

Nadukkudy V Eldho

2

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6 July 2017

Richard A Padgett

3

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6 July 2017

Kwaku T Dayie

4

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6 July 2017

language of work or name

English

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publication date

1 February 2006

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6 July 2017

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6 July 2017

volume

12

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6 July 2017

issue

2

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6 July 2017

page(s)

235-247

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A single active-site region for a group II intron

6 July 2017

cites work

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Solution structure of domain 5 of a group II intron ribozyme reveals a new RNA motif

20 March 2017

1 reference

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Metal binding and base ionization in the U6 RNA intramolecular stem-loop structure

20 March 2017

1 reference

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Structural insights into group II intron catalysis and branch-site selection

20 March 2017

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20 March 2017

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Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination

20 March 2017

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A network of heterogeneous hydrogen bonds in GNRA tetraloops

20 March 2017

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20 March 2017

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A general two-metal-ion mechanism for catalytic RNA

20 March 2017

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Comparative and functional anatomy of group II catalytic introns--a review

20 March 2017

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20 March 2017

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Synthesis of small RNAs using T7 RNA polymerase

7 April 2017

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Prediction of charge-induced molecular alignment of biomolecules dissolved in dilute liquid-crystalline phases

7 April 2017

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A guide to ions and RNA structure

29 September 2017

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A catalytically active group II intron domain 5 can function in the U12-dependent spliceosome

29 September 2017

1 reference

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Spliceosomal snRNAs: Mg(2+)-dependent chemistry at the catalytic core?

29 September 2017

1 reference

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Metal ion coordination by the AGC triad in domain 5 contributes to group II intron catalysis

29 September 2017

1 reference

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Dipolar couplings in macromolecular structure determination

29 September 2017

1 reference

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A maximum likelihood method for determining D(a)(PQ) and R for sets of dipolar coupling data

29 September 2017

1 reference

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A tertiary interaction that links active-site domains to the 5' splice site of a group II intron

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Tight binding of the 5' exon to domain I of a group II self-splicing intron requires completion of the intron active site

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Differential chemical probing of a group II self-splicing intron identifies bases involved in tertiary interactions and supports an alternative secondary structure model of domain V

29 September 2017

1 reference

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Stopped-flow fluorescence spectroscopy of a group II intron ribozyme reveals that domain 1 is an independent folding unit with a requirement for specific Mg2+ ions in the tertiary structure

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Catalytic role of 2'-hydroxyl groups within a group II intron active site

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Studies of point mutants define three essential paired nucleotides in the domain 5 substructure of a group II intron

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Catalytically critical nucleotide in domain 5 of a group II intron

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Group II intron domain 5 facilitates a trans-splicing reaction

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

The generality of self-splicing RNA: relationship to nuclear mRNA splicing

29 September 2017

1 reference

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On the origin of RNA splicing and introns

29 September 2017

1 reference

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Self-splicing group II and nuclear pre-mRNA introns: how similar are they?

29 September 2017

1 reference

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Thiophosphates in yeast U6 snRNA specifically affect pre-mRNA splicingin vitro

29 September 2017

1 reference

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Group II introns deleted for multiple substructures retain self-splicing activity

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Multiple functions for the invariant AGC triad of U6 snRNA.

29 September 2017

1 reference

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Photocrosslinking of 4-thio uracil-containing RNAs supports a side-by-side arrangement of domains 5 and 6 of a group II intron

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Defining functional groups, core structural features and inter-domain tertiary contacts essential for group II intron self-splicing: a NAIM analysis

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Ribozyme catalysis from the major groove of group II intron domain 5.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

A robust method for determining the magnitude of the fully asymmetric alignment tensor of oriented macromolecules in the absence of structural information

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

The reverse-transcriptase-like proteins encoded by group II introns in the mitochondrial genome of the brown alga Pylaiella littoralis belong to two different lineages which apparently coevolved with the group II ribosyme lineages

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Preparation of isotopically enriched RNAs for heteronuclear NMR.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

The mitochondrial LSU rDNA of the brown alga Pylaiella littoralis reveals alpha-proteobacterial features and is split by four group IIB introns with an atypical phylogeny

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

U6 snRNA function in nuclear pre-mRNA splicing: a phosphorothioate interference analysis of the U6 phosphate backbone.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

U2–U6 RNA folding reveals a group II intron-like domain and a four-helix junction

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

A novel interactive tool for rigid-body modeling of multi-domain macromolecules using residual dipolar couplings.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Metal-ion coordination by U6 small nuclear RNA contributes to catalysis in the spliceosome.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Calculating the electrostatic properties of RNA provides new insights into molecular interactions and function

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Localizing the NADP+ binding site on the MurB enzyme by NMR.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1370903

Metal ion binding sites in a group II intron core

27 November 2018

1 reference

12 December 2020

A group II self-splicing intron from the brown alga Pylaiella littoralis is active at unusually low magnesium concentrations and forms populations of molecules with a uniform conformation

1 reference

12 December 2020

The role of coherence transfer efficiency in design of TROSY-type multidimensional NMR experiments

1 reference

12 December 2020

Resolution enhanced homonuclear carbon decoupled triple resonance experiments for unambiguous RNA structural characterization

1 reference

12 December 2020

Catalytic site components common to both splicing steps of a group II intron

1 reference

12 December 2020

Identifiers

DOI

10.1261/RNA.2237806

1 reference

6 July 2017

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6 July 2017

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