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The low-resolution structural models of hepatitis C virus RNA subdomain 5BSL3.2 and its distal compl

Journal Article · · Nucleic Acids Res.
DOI:https://doi.org/10.1093/nar/gkac061· OSTI ID:1901114

Research Organization:
Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, IL (US)
Sponsoring Organization:
DOE - Office Of Science; NCI
OSTI ID:
1901114
Journal Information:
Nucleic Acids Res., Journal Name: Nucleic Acids Res. Journal Issue: (4) Vol. 50
Country of Publication:
United States
Language:
ENGLISH

References (54)

Uniqueness of ab initio shape determination in small-angle scattering journal April 2003
Base pairing between hepatitis C virus RNA and 18S rRNA is required for IRES-dependent translation initiation in vivo journal October 2014
The 5BSL3.2 Functional RNA Domain Connects Distant Regions in the Hepatitis C Virus Genome journal October 2017
Template Requirement and Initiation Site Selection by Hepatitis C Virus Polymerase on a Minimal Viral RNA Template journal June 2000
A Hepatitis C Virus cis-Acting Replication Element Forms a Long-Range RNA-RNA Interaction with Upstream RNA Sequences in NS5B journal July 2008
A twist in the tail: SHAPE mapping of long-range interactions and structural rearrangements of RNA elements involved in HCV replication journal May 2012
NMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy journal December 2014
The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data journal March 2008
Comparing SARS-CoV-2 with SARS-CoV and influenza pandemics journal September 2020
Replication of Subgenomic Hepatitis C Virus RNAs in a Hepatoma Cell Line journal July 1999
Hepatitis C virus RNA: molecular switches mediated by long-range RNA–RNA interactions? journal December 2012
VARNA: Interactive drawing and editing of the RNA secondary structure journal April 2009
Secondary structure determination of the conserved 98-base sequence at the 3' terminus of hepatitis C virus genome RNA. journal January 1997
The EMBL-EBI search and sequence analysis tools APIs in 2019 journal April 2019
Structures of flavivirus RNA promoters suggest two binding modes with NS5 polymerase journal May 2021
RNApdbee 2.0: multifunctional tool for RNA structure annotation journal April 2018
RNA-dependent RNA polymerase of hepatitis C virus binds to its coding region RNA stem-loop structure, 5BSL3.2, and its negative strand journal January 2010
Inhibition of hepatitis C virus replication by pol III-directed overexpression of RNA decoys corresponding to stem-loop structures in the NS5B coding region journal November 2005
Structural basis for RNA replication by the hepatitis C virus polymerase journal February 2015
Low-Temperature NMR Studies on Inosine Wobble Base Pairs journal July 2011
An overview of the Amber biomolecular simulation package: Amber biomolecular simulation package
  • Salomon-Ferrer, Romelia; Case, David A.; Walker, Ross C.
  • Wiley Interdisciplinary Reviews: Computational Molecular Science, Vol. 3, Issue 2 https://doi.org/10.1002/wcms.1121
journal September 2012
3′ RNA Elements in Hepatitis C Virus Replication: Kissing Partners and Long Poly(U) journal October 2007
The hepatitis C virus Core protein is a potent nucleic acid chaperone that directs dimerization of the viral (+) strand RNA in vitro journal April 2004
Mutations of the SL2 dimerization sequence of the hepatitis C genome abrogate viral replication journal March 2015
Inhibition of HCV translation by disrupting the structure and interactions of the viral CRE and 3′ X-tail journal February 2015
Identification of a Conserved RNA-dependent RNA Polymerase (RdRp)-RNA Interface Required for Flaviviral Replication journal August 2016
Challenges and Promise of a Hepatitis C Virus Vaccine journal September 2019
Determination of the regularization parameter in indirect-transform methods using perceptual criteria journal August 1992
PRIMUS: a Windows PC-based system for small-angle scattering data analysis journal September 2003
Accurate assessment of mass, models and resolution by small-angle scattering journal April 2013
Functional long-range RNA–RNA interactions in positive-strand RNA viruses journal June 2014
Structural characterization of the highly conserved 98-base sequence at the 3' end of HCV RNA genome and the complementary sequence located at the 5' end of the replicative viral strand journal January 2005
FoXS, FoXSDock and MultiFoXS: Single-state and multi-state structural modeling of proteins and their complexes based on SAXS profiles journal May 2016
The flavivirus-conserved penta-nucleotide in the 3′ stem-loop of the West Nile virus genome requires a specific sequence and structure for RNA synthesis, but not for viral translation journal January 2005
Cryo-EM structure of Hepatitis C virus IRES bound to the human ribosome at 3.9-Å resolution journal July 2015
Kissing-Loop Interaction in the 3′ End of the Hepatitis C Virus Genome Essential for RNA Replication journal January 2005
UCSF Chimera?A visualization system for exploratory research and analysis journal January 2004
New developments in the ATSAS program package for small-angle scattering data analysis journal March 2012
MolProbity: More and better reference data for improved all-atom structure validation: PROTEIN SCIENCE.ORG journal November 2017
The conserved 3′X terminal domain of hepatitis C virus genomic RNA forms a two-stem structure that promotes viral RNA dimerization journal August 2015
The functional RNA domain 5BSL3.2 within the NS5B coding sequence influences hepatitis C virus IRES-mediated translation journal May 2011
Analysis of hepatitis C virus RNA dimerization and core-RNA interactions journal January 2006
Determination of the secondary structure of and cellular protein binding to the 3'-untranslated region of the hepatitis C virus RNA genome. journal January 1997
Structure and function analysis of the essential 3′X domain of hepatitis C virus journal November 2019
Automated matching of high- and low-resolution structural models journal February 2001
Template Requirements for RNA Synthesis by a Recombinant Hepatitis C Virus RNA-Dependent RNA Polymerase journal December 2000
Determination of the molecular weight of proteins in solution from a single small-angle X-ray scattering measurement on a relative scale journal December 2009
Restoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing journal June 1999
A cis -Acting Replication Element in the Sequence Encoding the NS5B RNA-Dependent RNA Polymerase Is Required for Hepatitis C Virus RNA Replication journal February 2004
A long-range RNA-RNA interaction between the 5' and 3' ends of the HCV genome journal July 2009
An unexpected RNA distal interaction mode found in an essential region of the hepatitis C virus genome journal February 2018
Genetic Organization and Diversity of the 3′ Noncoding Region of the Hepatitis C Virus Genome journal September 1996
End-to-end crosstalk within the hepatitis C virus genome mediates the conformational switch of the 3′X-tail region journal September 2013
SimRNAweb: a web server for RNA 3D structure modeling with optional restraints journal April 2016

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