Resolving fast and slow motions in the internal loop containing stem-loop 1 of HIV-1 that are modulated by Mg2+ binding: role in the kissing-duplex structural transition (Q42804986)

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scientific article published on 20 February 2007

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English	Resolving fast and slow motions in the internal loop containing stem-loop 1 of HIV-1 that are modulated by Mg2+ binding: role in the kissing-duplex structural transition	scientific article published on 20 February 2007

Statements

scholarly article

1 reference

Europe PubMed Central

7 November 2017

Resolving fast and slow motions in the internal loop containing stem-loop 1 of HIV-1 that are modulated by Mg2+ binding: role in the kissing-duplex structural transition (English)

1 reference

Europe PubMed Central

7 November 2017

author name string

Xiaoyan Sun

1

1 reference

Europe PubMed Central

7 November 2017

Qi Zhang

2

1 reference

Europe PubMed Central

7 November 2017

Hashim M Al-Hashimi

3

1 reference

Europe PubMed Central

7 November 2017

language of work or name

0 references

publication date

20 February 2007

1 reference

Europe PubMed Central

7 November 2017

Nucleic Acids Research

1 reference

Europe PubMed Central

7 November 2017

35

1 reference

Europe PubMed Central

7 November 2017

5

1 reference

Europe PubMed Central

7 November 2017

1698-1713

1 reference

Europe PubMed Central

7 November 2017

NMR View: A computer program for the visualization and analysis of NMR data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1865058

27 May 2018

Structural plasticity and Mg2+ binding properties of RNase P P4 from combined analysis of NMR residual dipolar couplings and motionally decoupled spin relaxation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1865058

27 May 2018

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

1 reference

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27 May 2018

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

1 reference

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Dynamics-based amplification of RNA function and its characterization by using NMR spectroscopy

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NMR methods for studying the structure and dynamics of RNA.

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27 May 2018

How retroviruses select their genomes

1 reference

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27 May 2018

A riboswitch regulates RNA dimerization and packaging in human immunodeficiency virus type 1 virions

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Dimerization of retroviral RNA genomes: an inseparable pair.

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27 May 2018

On the stability of different experimental dimeric structures of the SL1 sequence from the genomic RNA of HIV-1 in solution: a molecular dynamics simulation and electrophoresis study

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27 May 2018

Argininamide binding arrests global motions in HIV-1 TAR RNA: comparison with Mg2+-induced conformational stabilization

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MD studies of the DIS/DIS kissing complex solution and x-ray structures

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27 May 2018

A proton-coupled dynamic conformational switch in the HIV-1 dimerization initiation site kissing complex

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27 May 2018

Molecular dynamics simulations of RNA kissing-loop motifs reveal structural dynamics and formation of cation-binding pockets

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27 May 2018

Kissing complex-mediated dimerisation of HIV-1 RNA: coupling extended duplex formation to ribozyme cleavage

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27 May 2018

NMR spectroscopy of RNA.

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27 May 2018

Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings

1 reference

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27 May 2018

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

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27 May 2018

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

1 reference

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27 May 2018

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

1 reference

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27 May 2018

Structure and stability of wild-type and mutant RNA internal loops from the SL-1 domain of the HIV-1 packaging signal

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27 May 2018

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

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27 May 2018

Proteolytic processing of the p2/nucleocapsid cleavage site is critical for human immunodeficiency virus type 1 RNA dimer maturation.

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27 May 2018

Structural and dynamic analysis of residual dipolar coupling data for proteins

1 reference

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27 May 2018

Two alternating structures of the HIV-1 leader RNA

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HYDRONMR: prediction of NMR relaxation of globular proteins from atomic-level structures and hydrodynamic calculations.

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27 May 2018

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

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27 May 2018

The leader of the HIV-1 RNA genome forms a compactly folded tertiary structure

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Mutations within four distinct gag proteins are required to restore replication of human immunodeficiency virus type 1 after deletion mutagenesis within the dimerization initiation site.

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Solution structure and thermodynamics of a divalent metal ion binding site in an RNA pseudoknot

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Order matrix analysis of residual dipolar couplings using singular value decomposition.

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Tunable alignment of macromolecules by filamentous phage yields dipolar coupling interactions

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NMR scalar couplings across Watson-Crick base pair hydrogen bonds in DNA observed by transverse relaxation-optimized spectroscopy

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27 May 2018

Mapping the RNA binding sites for human immunodeficiency virus type-1 gag and NC proteins within the complete HIV-1 and -2 untranslated leader regions.

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27 May 2018

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

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Direct measurement of distances and angles in biomolecules by NMR in a dilute liquid crystalline medium

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Determinants of the human immunodeficiency virus type 1 p15NC-RNA interaction that affect enhanced cleavage by the viral protease.

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NMR evidence for slow collective motions in cyanometmyoglobin

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Mutant human immunodeficiency virus type 1 genomes with defects in RNA dimerization or encapsidation

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Dimerization of retroviral genomic RNAs: structural and functional implications

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Structure and function of the human immunodeficiency virus leader RNA.

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

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

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NMRPipe: a multidimensional spectral processing system based on UNIX pipes

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Maturation of dimeric viral RNA of Moloney murine leukemia virus.

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

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Cleavage of p15 protein in vitro by human immunodeficiency virus type 1 protease is RNA dependent

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Characterization of human immunodeficiency virus type 1 dimeric RNA from wild-type and protease-defective virions

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RNA secondary structure and binding sites for gag gene products in the 5' packaging signal of human immunodeficiency virus type 1.

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

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16 August 2018

Affinities of packaging domain loops in HIV-1 RNA for the nucleocapsid protein

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16 August 2018

Concerted motions in HIV-1 TAR RNA may allow access to bound state conformations: RNA dynamics from NMR residual dipolar couplings.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1865058

16 August 2018

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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

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16 August 2018

The HIV-1(Lai) RNA dimerization. Thermodynamic parameters associated with the transition from the kissing complex to the extended dimer.

1 reference

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

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16 August 2018

NMR analysis of intra- and inter-molecular stems in the dimerization initiation site of the HIV-1 genome

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Conformational pathway for the kissing complex-->extended dimer transition of the SL1 stem-loop from genomic HIV-1 RNA as monitored by targeted molecular dynamics techniques

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Impact of static and dynamic A-form heterogeneity on the determination of RNA global structural dynamics using NMR residual dipolar couplings

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Ultrastructure of HIV-1 genomic RNA

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

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/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Variation of molecular alignment as a means of resolving orientational ambiguities in protein structures from dipolar couplings

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The HIV-1 leader RNA conformational switch regulates RNA dimerization but does not regulate mRNA translation

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Transmission electron microscopy reveals an optimal HIV-1 nucleocapsid aggregation with single-stranded nucleic acids and the mature HIV-1 nucleocapsid protein

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Probing motions between equivalent RNA domains using magnetic field induced residual dipolar couplings: accounting for correlations between motions and alignment

1 reference

https://pubmed.ncbi.nlm.nih.gov/17311812

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based on heuristic

inferred from PubMed ID database lookup

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10.1093/NAR/GKM020

1 reference

Europe PubMed Central

7 November 2017

1 reference

Europe PubMed Central

7 November 2017

1 reference

Europe PubMed Central

7 November 2017

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