Cryo-EM and antisense targeting of the 28-kDa frameshift stimulation element from the SARS-CoV-2 RNA genome.

Autor: Zhang K; Departments of Bioengineering, James H. Clark Center, Stanford University, Stanford, CA, USA.; MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, Hefei National Laboratory for Physical Sciences at the Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, China., Zheludev IN; Department of Biochemistry Stanford University, Stanford, CA, USA., Hagey RJ; Departments of Medicine (Division of Gastroenterology and Hepatology) and Microbiology & Immunology, Stanford School of Medicine, Stanford, CA, USA., Haslecker R; Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA, USA., Hou YJ; Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., Kretsch R; Biophysics Program, Stanford University, Stanford, CA, USA., Pintilie GD; Departments of Bioengineering, James H. Clark Center, Stanford University, Stanford, CA, USA., Rangan R; Biophysics Program, Stanford University, Stanford, CA, USA., Kladwang W; Department of Biochemistry Stanford University, Stanford, CA, USA., Li S; Departments of Bioengineering, James H. Clark Center, Stanford University, Stanford, CA, USA.; MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, Hefei National Laboratory for Physical Sciences at the Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, China., Wu MT; Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA, USA., Pham EA; Departments of Medicine (Division of Gastroenterology and Hepatology) and Microbiology & Immunology, Stanford School of Medicine, Stanford, CA, USA., Bernardin-Souibgui C; Departments of Medicine (Division of Gastroenterology and Hepatology) and Microbiology & Immunology, Stanford School of Medicine, Stanford, CA, USA., Baric RS; Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.; Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., Sheahan TP; Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., D'Souza V; Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA, USA., Glenn JS; Departments of Medicine (Division of Gastroenterology and Hepatology) and Microbiology & Immunology, Stanford School of Medicine, Stanford, CA, USA. jeffrey.glenn@stanford.edu.; Palo Alto Veterans Administration, Palo Alto, CA, USA. jeffrey.glenn@stanford.edu., Chiu W; Departments of Bioengineering, James H. Clark Center, Stanford University, Stanford, CA, USA. wahc@stanford.edu.; Biophysics Program, Stanford University, Stanford, CA, USA. wahc@stanford.edu.; CryoEM and Bioimaging Division, Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA, USA. wahc@stanford.edu., Das R; Department of Biochemistry Stanford University, Stanford, CA, USA. rhiju@stanford.edu.; Biophysics Program, Stanford University, Stanford, CA, USA. rhiju@stanford.edu.; Department of Physics, Stanford University, Stanford, CA, USA. rhiju@stanford.edu.

Publikováno v: Nature structural & molecular biology [Nat Struct Mol Biol] 2021 Sep; Vol. 28 (9), pp. 747-754. Date of Electronic Publication: 2021 Aug 23.

De novo 3D models of SARS-CoV-2 RNA elements from consensus experimental secondary structures.

Autor: Rangan R; Biophysics Program, Stanford University, Stanford, CA 94305, USA., Watkins AM; Department of Biochemistry, Stanford University School of Medicine, Stanford CA 94305, USA., Chacon J; Department of Biochemistry, Stanford University School of Medicine, Stanford CA 94305, USA., Kretsch R; Biophysics Program, Stanford University, Stanford, CA 94305, USA., Kladwang W; Department of Biochemistry, Stanford University School of Medicine, Stanford CA 94305, USA., Zheludev IN; Department of Biochemistry, Stanford University School of Medicine, Stanford CA 94305, USA., Townley J; Eterna Massive Open Laboratory., Rynge M; Information Sciences Institute, University of Southern California, Marina Del Rey, CA 90292, USA., Thain G; Department of Computer Sciences, University of Wisconsin-Madison, Madison, WI 53706 USA., Das R; Biophysics Program, Stanford University, Stanford, CA 94305, USA.; Department of Biochemistry, Stanford University School of Medicine, Stanford CA 94305, USA.; Department of Physics, Stanford University, Stanford, CA 94305, USA.

Publikováno v: Nucleic acids research [Nucleic Acids Res] 2021 Apr 06; Vol. 49 (6), pp. 3092-3108.

Cryo-electron Microscopy and Exploratory Antisense Targeting of the 28-kDa Frameshift Stimulation Element from the SARS-CoV-2 RNA Genome.

Autor: Zhang K, Zheludev IN, Hagey RJ, Wu MT, Haslecker R, Hou YJ, Kretsch R, Pintilie GD, Rangan R, Kladwang W, Li S, Pham EA, Bernardin-Souibgui C, Baric RS, Sheahan TP, D Souza V, Glenn JS, Chiu W, Das R

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2020 Jul 20. Date of Electronic Publication: 2020 Jul 20.

Fast and flexible gpu accelerated binding free energy calculations within the amber molecular dynamics package.

Autor: Mermelstein DJ; Department of Chemistry & Biochemistry, University of California San Diego, 9500 Gilman Drive, La Jolla, California, 92093., Lin C; Department of Chemistry & Biochemistry, University of California San Diego, 9500 Gilman Drive, La Jolla, California, 92093.; GlaxoSmithKline PLC, 1250 S. Collegeville Rd, Collegeville, Pennsylvania, 19426., Nelson G; NantBioscience, Inc., 9920 Jefferson Boulevard, Culver City, California, 90232., Kretsch R; Department of Chemistry & Biochemistry, University of California San Diego, 9500 Gilman Drive, La Jolla, California, 92093.; Harvey Mudd College, 301 Platt Blvd, Claremont, California, 91711., McCammon JA; Department of Chemistry & Biochemistry, University of California San Diego, 9500 Gilman Drive, La Jolla, California, 92093., Walker RC; Department of Chemistry & Biochemistry, University of California San Diego, 9500 Gilman Drive, La Jolla, California, 92093.; GlaxoSmithKline PLC, 1250 S. Collegeville Rd, Collegeville, Pennsylvania, 19426.

Publikováno v: Journal of computational chemistry [J Comput Chem] 2018 Jul 15; Vol. 39 (19), pp. 1354-1358. Date of Electronic Publication: 2018 Mar 12.

Iron metabolism: pathways and proteins in homeostasis.

Autor: Arora, Ekta Kundra¹ (AUTHOR) ekta.kundra@ststephens.edu, Sharma, Vibha¹ (AUTHOR)

Publikováno v: Reviews in Inorganic Chemistry. Dec2023, Vol. 43 Issue 4, p523-545. 23p.