DEAD-box proteins as RNA helicases and chaperones (Q24631331)

Europe PubMed Central

title

DEAD-box proteins as RNA helicases and chaperones (English)

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Inga Jarmoskaite

1

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Rick Russell

series ordinal

2

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language of work or name

English

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publication date

2011

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Wiley interdisciplinary reviews. RNA

published in

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SF1 and SF2 helicases: family matters

volume

2

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page(s)

135-52

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issue

1

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cites work

1 reference

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ATP hydrolysis is required for DEAD-box protein recycling but not for duplex unwinding

7 April 2017

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Dead-box proteins: a family affair--active and passive players in RNP-remodeling

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The crystal structure of the exon junction complex reveals how it maintains a stable grip on mRNA

7 April 2017

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Structural basis for the enhancement of eIF4A helicase activity by eIF4G.

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Hsp70 chaperones: cellular functions and molecular mechanism

7 April 2017

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Characterization of the ATPase and unwinding activities of the yeast DEAD-box protein Has1p and the analysis of the roles of the conserved motifs

7 April 2017

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The spliceosome deposits multiple proteins 20-24 nucleotides upstream of mRNA exon-exon junctions

7 April 2017

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Crystal structure of yeast initiation factor 4A, a DEAD-box RNA helicase

7 April 2017

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Dbp5, a DEAD-box protein required for mRNA export, is recruited to the cytoplasmic fibrils of nuclear pore complex via a conserved interaction with CAN/Nup159p

7 April 2017

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Mutational analysis of a DEAD box RNA helicase: the mammalian translation initiation factor eIF-4A

7 April 2017

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Insights into the recruitment of the NMD machinery from the crystal structure of a core EJC-UPF3b complex

7 April 2017

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Structure of the C-terminus of the mRNA export factor Dbp5 reveals the interaction surface for the ATPase activator Gle1

7 April 2017

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Structure of the Yeast DEAD Box Protein Mss116p Reveals Two Wedges that Crimp RNA

7 April 2017

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The Thermus thermophilus DEAD box helicase Hera contains a modified RNA recognition motif domain loosely connected to the helicase core

7 April 2017

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Structural basis for the mutually exclusive anchoring of P body components EDC3 and Tral to the DEAD box protein DDX6/Me31B

7 April 2017

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Solution and crystal structures of mRNA exporter Dbp5p and its interaction with nucleotides

7 April 2017

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The DEXD/H-box RNA Helicase DDX19 Is Regulated by an -Helical Switch

7 April 2017

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The mRNA export protein DBP5 binds RNA and the cytoplasmic nucleoporin NUP214 in a mutually exclusive manner

7 April 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Structural and functional analysis of the interaction between the nucleoporin Nup214 and the DEAD-box helicase Ddx19

7 April 2017

1 reference

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A novel dimerization motif in the C-terminal domain of the Thermus thermophilus DEAD box helicase Hera confers substantial flexibility

7 April 2017

1 reference

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Mechanism of ATP turnover inhibition in the EJC

7 April 2017

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Crystal Structure of a Self-Spliced Group II Intron

7 April 2017

1 reference

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Crystal structure of conserved domains 1 and 2 of the human DEAD-box helicase DDX3X in complex with the mononucleotide AMP

7 April 2017

1 reference

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Structural basis for DNA duplex separation by a superfamily-2 helicase

7 April 2017

1 reference

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The requirement for eukaryotic initiation factor 4A (elF4A) in translation is in direct proportion to the degree of mRNA 5' secondary structure.

7 April 2017

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Crystal structure of a DEAD box protein from the hyperthermophile Methanococcus jannaschii

7 April 2017

1 reference

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The DEAD-box RNA helicase Dbp5 functions in translation termination

7 April 2017

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Involvement of DEAD-box proteins in group I and group II intron splicing. Biochemical characterization of Mss116p, ATP hydrolysis-dependent and -independent mechanisms, and general RNA chaperone activity

7 April 2017

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Activation of the DExD/H-box protein Dbp5 by the nuclear-pore protein Gle1 and its coactivator InsP6 is required for mRNA export

7 April 2017

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Discriminatory RNP remodeling by the DEAD-box protein DED1.

7 April 2017

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ATP- and ADP-dependent modulation of RNA unwinding and strand annealing activities by the DEAD-box protein DED1.

7 April 2017

1 reference

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The splicing of yeast mitochondrial group I and group II introns requires a DEAD-box protein with RNA chaperone function

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Rat8p/Dbp5p is a shuttling transport factor that interacts with Rat7p/Nup159p and Gle1p and suppresses the mRNA export defect of xpo1-1 cells

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Ded1p, a DEAD-box protein required for translation initiation in Saccharomyces cerevisiae, is an RNA helicase

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Mechanical devices of the spliceosome: motors, clocks, springs, and things

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

ATP hydrolysis by initiation factor 4A is required for translation initiation in Saccharomyces cerevisiae

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Structure of the exon junction core complex with a trapped DEAD-box ATPase bound to RNA

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Escherichia coli DbpA is an RNA helicase that requires hairpin 92 of 23S rRNA.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The Escherichia coli DEAD protein DbpA recognizes a small RNA hairpin in 23S rRNA.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Exposing the kinetic traps in RNA folding

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Structure and mechanism of helicases and nucleic acid translocases

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa

7 April 2017

1 reference

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7 April 2017

Birth of the D-E-A-D box

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Bidirectional RNA helicase activity of eucaryotic translation initiation factors 4A and 4F

7 April 2017

1 reference

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Dual roles for the Mss116 cofactor during splicing of the ai5γ group II intron

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Pathway of ATP utilization and duplex rRNA unwinding by the DEAD-box helicase, DbpA.

27 September 2017

1 reference

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Phosphate release contributes to the rate-limiting step for unwinding by an RNA helicase

27 September 2017

1 reference

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The mechanism of ATP-dependent RNA unwinding by DEAD box proteins

27 September 2017

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A dominant negative mutant of the E. coli RNA helicase DbpA blocks assembly of the 50S ribosomal subunit

27 September 2017

1 reference

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A conformational change in the helicase core is necessary but not sufficient for RNA unwinding by the DEAD box helicase YxiN.

27 September 2017

1 reference

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The current understanding of Ded1p/DDX3 homologs from yeast to human

27 September 2017

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DEAD-box proteins can completely separate an RNA duplex using a single ATP.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The putative RNase P motif in the DEAD box helicase Hera is dispensable for efficient interaction with RNA and helicase activity

27 September 2017

1 reference

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Translocation and unwinding mechanisms of RNA and DNA helicases

27 September 2017

1 reference

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A conformational rearrangement in the spliceosome sets the stage for Prp22-dependent mRNA release

27 September 2017

1 reference

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Non-hexameric DNA helicases and translocases: mechanisms and regulation

27 September 2017

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RNA chaperones, RNA annealers and RNA helicases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

A conserved phenylalanine of motif IV in superfamily 2 helicases is required for cooperative, ATP-dependent binding of RNA substrates in DEAD-box proteins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The ATPase cycle mechanism of the DEAD-box rRNA helicase, DbpA

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Cooperative binding of ATP and RNA induces a closed conformation in a DEAD box RNA helicase

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The E. coli RhlE RNA helicase regulates the function of related RNA helicases during ribosome assembly

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

DEAD-box proteins unwind duplexes by local strand separation

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Kinetic redistribution of native and misfolded RNAs by a DEAD-box chaperone

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The Bacillus subtilis RNA helicase YxiN is distended in solution

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Do DEAD-box proteins promote group II intron splicing without unwinding RNA?

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The mechanism of Hsp70 chaperones: (entropic) pulling the models together

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

RNA helicases--one fold for many functions

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Probing the mechanisms of DEAD-box proteins as general RNA chaperones: the C-terminal domain of CYT-19 mediates general recognition of RNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Ratcheting mRNA out of the nucleus

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Nonspecific binding to structured RNA and preferential unwinding of an exposed helix by the CYT-19 protein, a DEAD-box RNA chaperone

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

DEAD-box RNA helicases in Escherichia coli

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The domain of the Bacillus subtilis DEAD-box helicase YxiN that is responsible for specific binding of 23S rRNA has an RNA recognition motif fold

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

A DEAD-box protein alone promotes group II intron splicing and reverse splicing by acting as an RNA chaperone

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Crystal structure and functional analysis of DEAD-box protein Dhh1p

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Crystal structure of the human ATP-dependent splicing and export factor UAP56.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The newly discovered Q motif of DEAD-box RNA helicases regulates RNA-binding and helicase activity

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

eIF4AIII binds spliced mRNA in the exon junction complex and is essential for nonsense-mediated decay

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Yeast RNA helicases of the DEAD-box family involved in translation initiation

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The Q motif: a newly identified motif in DEAD box helicases may regulate ATP binding and hydrolysis

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The ATPase, RNA unwinding, and RNA binding activities of recombinant p68 RNA helicase

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Rearrangement of structured RNA via branch migration structures catalysed by the highly related DEAD-box proteins p68 and p72.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Further characterization of the helicase activity of eIF4A. Substrate specificity

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The HRIGRXXR region of the DEAD box RNA helicase eukaryotic translation initiation factor 4A is required for RNA binding and ATP hydrolysis

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

DbpA: a DEAD box protein specifically activated by 23s rRNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Mechanistic studies of ribonucleic acid renaturation by a helix-destabilizing protein

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

A lysine substitution in the ATP-binding site of eucaryotic initiation factor 4A abrogates nucleotide-binding activity

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Protein-facilitated folding of group II intron ribozymes

27 September 2017

1 reference

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Motif III in superfamily 2 "helicases" helps convert the binding energy of ATP into a high-affinity RNA binding site in the yeast DEAD-box protein Ded1.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Unwinding by local strand separation is critical for the function of DEAD-box proteins as RNA chaperones

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Function of the C-terminal domain of the DEAD-box protein Mss116p analyzed in vivo and in vitro

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

A DEAD-box protein functions as an ATP-dependent RNA chaperone in group I intron splicing

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

An RNA switch at the 5' splice site requires ATP and the DEAD box protein Prp28p

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Acceleration of RNA renaturation by nucleic acid unwinding proteins

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

mRNA export: RNP remodeling by DEAD-box proteins

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The DEAD-box protein Dbp5 controls mRNA export by triggering specific RNA:protein remodeling events

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The DEAD-box protein Ded1 unwinds RNA duplexes by a mode distinct from translocating helicases

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The paradoxical behavior of a highly structured misfolded intermediate in RNA folding.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Unwinding single RNA molecules using helicases involved in eukaryotic translation initiation.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

YxiN is a modular protein combining a DEx(D/H) core and a specific RNA-binding domain

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Escherichia coli DbpA is a 3' --> 5' RNA helicase

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Studies on three E. coli DEAD-box helicases point to an unwinding mechanism different from that of model DNA helicases.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Protein displacement by DExH/D "RNA helicases" without duplex unwinding

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

Cooperative binding of ATP and RNA substrates to the DEAD/H protein DbpA.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The DEAD box protein eIF4A. 2. A cycle of nucleotide and RNA-dependent conformational changes

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The DEAD box protein eIF4A. 1. A minimal kinetic and thermodynamic framework reveals coupled binding of RNA and nucleotide

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3032546

The ELAV protein HuD stimulates cap-dependent translation in a Poly(A)- and eIF4A-dependent manner

28 November 2018

1 reference

12 December 2020

RNA structural rearrangement via unwinding and annealing by the cyanobacterial RNA helicase, CrhR

1 reference

12 December 2020

New loop-loop tertiary interactions in self-splicing introns of subgroup IC and ID: a complete 3D model of the Tetrahymena thermophila ribozyme

1 reference

12 December 2020

Biochemical and kinetic characterization of the RNA helicase activity of eukaryotic initiation factor 4A

1 reference

12 December 2020

A DEAD protein that activates intron self-splicing without unwinding RNA

1 reference

12 December 2020

Identifiers

DOI

10.1002/WRNA.50

1 reference

1052573

1052573

1 reference

1 reference

1 reference