(Q37419549)

English

Noncovalent probes for the investigation of structure and dynamics of protein-nucleic acid assemblies: the case of NC-mediated dimerization of genomic RNA in HIV-1

scientific article published on April 2009

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Noncovalent probes for the investigation of structure and dynamics of protein-nucleic acid assemblies: the case of NC-mediated dimerization of genomic RNA in HIV-1 (English)

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

protein structure

0 references

author name string

Kevin B Turner

1

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Andrew S Kohlway

2

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Nathan A Hagan

3

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Daniele Fabris

4

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

publication date

1 April 2009

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

91

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

4

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

283-296

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

MS3D structural elucidation of the HIV-1 packaging signal

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Binding of aminoglycoside antibiotics to the duplex form of the HIV-1 genomic RNA dimerization initiation site

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Structural probing of the HIV-1 polypurine tract RNA:DNA hybrid using classic nucleic acid ligands

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Understanding the isomerization of the HIV-1 dimerization initiation domain by the nucleocapsid protein

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Dissecting the protein-RNA and RNA-RNA interactions in the nucleocapsid-mediated dimerization and isomerization of HIV-1 stemloop 1.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Inhibitory effects of archetypical nucleic acid ligands on the interactions of HIV-1 nucleocapsid protein with elements of Psi-RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Solution RNA structures of the HIV-1 dimerization initiation site in the kissing-loop and extended-duplex dimers

1 reference

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23 August 2017

Nucleic acid chaperone activity of HIV-1 nucleocapsid protein: critical role in reverse transcription and molecular mechanism

1 reference

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23 August 2017

2-Deoxystreptamine: central scaffold of aminoglycoside antibiotics

1 reference

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23 August 2017

Chemical and functional diversity of small molecule ligands for RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Direct probing of RNA structures and RNA-protein interactions in the HIV-1 packaging signal by chemical modification and electrospray ionization fourier transform mass spectrometry

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Stem of SL1 RNA in HIV-1: Structure and Nucleocapsid Protein Binding for a 1 × 3 Internal Loop,

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Structure of the intact stem and bulge of HIV-1 Psi-RNA stem-loop SL1

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Mechanism of nucleocapsid protein catalyzed structural isomerization of the dimerization initiation site of HIV-1.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Analysis of noncovalent complexes of DNA and RNA by mass spectrometry

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Effects of compound structure on carbazole dication-DNA complexes: tests of the minor-groove complex models

1 reference

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23 August 2017

NMR structure of the HIV-1 nucleocapsid protein bound to stem-loop SL2 of the psi-RNA packaging signal. Implications for genome recognition

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Probing RNA structure and RNA-ligand complexes with chemical probes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Dimer initiation sequence of HIV-1Lai genomic RNA: NMR solution structure of the extended duplex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Structure of the dimer initiation complex of HIV-1 genomic RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Structure of the HIV-1 nucleocapsid protein bound to the SL3 psi-RNA recognition element

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Structure of the A site of Escherichia coli 16S ribosomal RNA complexed with an aminoglycoside antibiotic

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Role of the DIS hairpin in replication of human immunodeficiency virus type 1

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

HIV-1 nucleocapsid protein induces "maturation" of dimeric retroviral RNA in vitro

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

A loop-loop "kissing" complex is the essential part of the dimer linkage of genomic HIV-1 RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Identification of the primary site of the human immunodeficiency virus type 1 RNA dimerization in vitro

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Classical electrostatics in biology and chemistry

1 reference

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23 August 2017

Sequence-dependent effects in drug-DNA interaction: the crystal structure of Hoechst 33258 bound to the d(CGCAAATTTGCG)2 duplex

1 reference

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23 August 2017

Chemical probes for higher-order structure in RNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Sequence-specific intercalating agents: intercalation at specific sequences on duplex DNA via major groove recognition by oligonucleotide-intercalator conjugates

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Probing the structure of RNAs in solution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

23 August 2017

Requirements for kissing-loop-mediated dimerization of human immunodeficiency virus RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

14 September 2017

Dimerization of retroviral genomic RNAs: structural and functional implications

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

28 September 2017

NMR structure of the full-length linear dimer of stem-loop-1 RNA in the HIV-1 dimer initiation site

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

26 June 2018

HIV-1 RNA dimerization initiation site is structurally similar to the ribosomal A site and binds aminoglycoside antibiotics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

26 June 2018

Toward building a database of bifunctional probes for the MS3D investigation of nucleic acids structures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Mapping noncovalent ligand binding to stemloop domains of the HIV-1 packaging signal by tandem mass spectrometry.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Polymorphism of bulged-out residues in HIV-1 RNA DIS kissing complex and structure comparison with solution studies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Untying the FIV frameshifting pseudoknot structure by MS3D.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Toward multiplexing the application of solvent accessibility probes for the investigation of RNA three-dimensional structures by electrospray ionization-Fourier transform mass spectrometry

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Direct mass spectrometric determination of the stoichiometry and binding affinity of the complexes between nucleocapsid protein and RNA stem-loop hairpins of the HIV-1 Psi-recognition element

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Two basic regions of NCp7 are sufficient for conformational conversion of HIV-1 dimerization initiation site from kissing-loop dimer to extended-duplex dimer

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Structural requirement for the two-step dimerization of human immunodeficiency virus type 1 genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

NMR structure of the mature dimer initiation complex of HIV-1 genomic RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

A 19-nucleotide sequence upstream of the 5' major splice donor is part of the dimerization domain of human immunodeficiency virus 1 genomic RNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Enzymatic and chemical structure mapping of mouse 28S ribosomal ribonucleic acid contacts in 5.8S ribosomal ribonucleic acid.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2776628

2 September 2018

Tandem mass spectrometry

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A guide for probing native small nuclear RNA and ribonucleoprotein structures

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Collisional activation of large multiply charged ions using Fourier transform mass spectrometry

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dimerization of HIV-1Lai RNA at low ionic strength. An autocomplementary sequence in the 5' leader region is evidenced by an antisense oligonucleotide

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Kissing-loop model of HIV-1 genome dimerization: HIV-1 RNAs can assume alternative dimeric forms, and all sequences upstream or downstream of hairpin 248-271 are dispensable for dimer formation

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A kissing complex together with a stable dimer is involved in the HIV-1Lai RNA dimerization process in vitro

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

NCp7 activates HIV-1Lai RNA dimerization by converting a transient loop-loop complex into a stable dimer

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nucleic-acid-chaperone activity of retroviral nucleocapsid proteins: significance for viral replication

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mechanism of hairpin-duplex conversion for the HIV-1 dimerization initiation site

1 reference

https://pubmed.ncbi.nlm.nih.gov/18946871

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1002/BIP.21107

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

ResearchGate publication ID

0 references

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