Paul Charles Whitford (Paul C Whitford)

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 36

Top Topics

Molecular Dynamics Simulations

Respiratory Syndrome Coronavirus

Angiotensin Converting Enzyme

Top Venues

The journal of physical chemistry. B

Nature communications

Nucleic acids research

Science (New York, N.Y.)

This page only lists publications with an associated author ORCID identifier.

Publications

Vivek Singh, Yuzuru Itoh, Samuel Del'Olio, Asem Hassan, Andreas Naschberger, Rasmus Kock Flygaard, Yuko Nobe, Keiichi Izumikawa, Shintaro Aibara, Juni Andréll, Paul Charles Whitford, Antoni Barrientos, Masato Taoka, Alexey Amunts
Mitoribosome structure with cofactors and modifications reveals mechanism of ligand binding and interactions with L1 stalk. Nature communications 15 (1) (2024)
Michael W Grunst, Zhuan Qin, Esteban Dodero-Rojas, Shilei Ding, Jérémie Prévost, Yaozong Chen, Yanping Hu, Marzena E Pazgier, Shenping Wu, Xuping Xie, Andrés Finzi, José Nelson Onuchic, Paul Charles Whitford, Walther Mothes, Wenwei Li
Structure and inhibition of SARS-CoV-2 spike refolding in membranes. Science (New York, N.Y.) 385 (6710) (2024)
Vivek Singh, Yuzuru Itoh, Samuel Del'Olio, Asem Hassan, Andreas Naschberger, Rasmus Kock Flygaard, Yuko Nobe, Keiichi Izumikawa, Shintaro Aibara, Juni Andréll, Paul Charles Whitford, Antoni Barrientos, Masato Taoka, Alexey Amunts
Mitoribosome structure with cofactors and modifications reveals mechanism of ligand binding and interactions with L1 stalk. Nature communications 15 (1) (2024)
Vivek Singh, Yuzuru Itoh, Samuel Del'Olio, Asem Hassan, Andreas Naschberger, Rasmus Kock Flygaard, Yuko Nobe, Keiichi Izumikawa, Shintaro Aibara, Juni Andréll, Paul Charles Whitford, Antoni Barrientos, Masato Taoka, Alexey Amunts
Mitoribosome structure with cofactors and modifications reveals mechanism of ligand binding and interactions with L1 stalk. Nature communications 15 (1) (2024)
Vivek Singh, Yuzuru Itoh, Samuel Del'Olio, Asem Hassan, Andreas Naschberger, Rasmus Kock Flygaard, Yuko Nobe, Keiichi Izumikawa, Shintaro Aibara, Juni Andréll, Paul Charles Whitford, Antoni Barrientos, Masato Taoka, Alexey Amunts
Mitoribosome structure with cofactors and modifications reveals mechanism of ligand binding and interactions with L1 stalk. Nature communications 15 (1) (2024)
Vivek Singh, Yuzuru Itoh, Samuel Del'Olio, Asem Hassan, Andreas Naschberger, Rasmus Kock Flygaard, Yuko Nobe, Keiichi Izumikawa, Shintaro Aibara, Juni Andréll, Paul Charles Whitford, Antoni Barrientos, Masato Taoka, Alexey Amunts
Mitoribosome structure with cofactors and modifications reveals mechanism of ligand binding and interactions with L1 stalk. Nature communications 15 (1) (2024)
Michael W Grunst, Zhuan Qin, Esteban Dodero-Rojas, Shilei Ding, Jérémie Prévost, Yaozong Chen, Yanping Hu, Marzena E Pazgier, Shenping Wu, Xuping Xie, Andrés Finzi, José Nelson Onuchic, Paul Charles Whitford, Walther Mothes, Wenwei Li
Structure and inhibition of SARS-CoV-2 spike refolding in membranes. Science (New York, N.Y.) 385 (6710) (2024)
Michael W Grunst, Zhuan Qin, Esteban Dodero-Rojas, Shilei Ding, Jérémie Prévost, Yaozong Chen, Yanping Hu, Marzena E Pazgier, Shenping Wu, Xuping Xie, Andrés Finzi, José Nelson Onuchic, Paul Charles Whitford, Walther Mothes, Wenwei Li
Structure and inhibition of SARS-CoV-2 spike refolding in membranes. Science (New York, N.Y.) 385 (6710) (2024)
Faruck Morcos, Paul Charles Whitford, Margaret S Cheung
Biography of José N. Onuchic. The journal of physical chemistry. B 127 (35) (2023)
Vivek Singh, Yuzuru Itoh, Samuel Del'Olio, Asem Hassan, Andreas Naschberger, Rasmus Kock Flygaard, Yuko Nobe, Keiichi Izumikawa, Shintaro Aibara, Juni Andréll, Paul Charles Whitford, Antoni Barrientos, Masato Taoka, Alexey Amunts
Structure of mitoribosome reveals mechanism of mRNA binding, tRNA interactions with L1 stalk, roles of cofactors and rRNA modifications. bioRxiv : the preprint server for biology (2023)
Asem Hassan, Sandra Byju, Frederico Campos Freitas, Claude Roc, Nisaa Pender, Kien Nguyen, Evelyn M Kimbrough, Jacob M Mattingly, Ruben L Gonzalez, Ronaldo Junio de Oliveira, Christine M Dunham, Paul Charles Whitford
Ratchet, swivel, tilt and roll: a complete description of subunit rotation in the ribosome. Nucleic acids research 51 (2) (2023)
Asem Hassan, Sandra Byju, Frederico Campos Freitas, Claude Roc, Nisaa Pender, Kien Nguyen, Evelyn M Kimbrough, Jacob M Mattingly, Ruben L Gonzalez, Ronaldo Junio de Oliveira, Christine M Dunham, Paul Charles Whitford
Ratchet, swivel, tilt and roll: a complete description of subunit rotation in the ribosome. Nucleic acids research 51 (2) (2023)
Sandra Byju, Asem Hassan, Paul Charles Whitford
The energy landscape of the ribosome. Biopolymers (2023)
Asem Hassan, Sandra Byju, Frederico Campos Freitas, Claude Roc, Nisaa Pender, Kien Nguyen, Evelyn M Kimbrough, Jacob M Mattingly, Ruben L Gonzalez, Ronaldo Junio de Oliveira, Christine M Dunham, Paul Charles Whitford
Ratchet, swivel, tilt and roll: a complete description of subunit rotation in the ribosome. Nucleic acids research 51 (2) (2023)
Asem Hassan, Sandra Byju, Frederico Campos Freitas, Claude Roc, Nisaa Pender, Kien Nguyen, Evelyn M Kimbrough, Jacob M Mattingly, Ruben L Gonzalez, Ronaldo Junio de Oliveira, Christine M Dunham, Paul Charles Whitford
Ratchet, swivel, tilt and roll: a complete description of subunit rotation in the ribosome. Nucleic acids research (2022)
Raphael Vinicius Rodrigues Dias, Carolina Tatiani Alves Ferreira, Patricia Ann Jennings, Paul Charles Whitford, Leandro Cristante de Oliveira
Csk αC Helix: A Computational Analysis of an Essential Region for Conformational Transitions. The journal of physical chemistry. B (2022)
Asem Hassan, Paul Charles Whitford
Identifying Strategies to Experimentally Probe Multidimensional Dynamics in the Ribosome. The journal of physical chemistry. B 126 (42) (2022)
Ailun Wang, Mariana Levi, Udayan Mohanty, Paul Charles Whitford
Diffuse Ions Coordinate Dynamics in a Ribonucleoprotein Assembly. Journal of the American Chemical Society 144 (21) (2022)
Raphael Vinicius Rodrigues Dias, Carolina Tatiani Alves Ferreira, Patricia Ann Jennings, Paul Charles Whitford, Leandro Cristante de Oliveira
Csk αC Helix: A Computational Analysis of an Essential Region for Conformational Transitions. The journal of physical chemistry. B 126 (50) (2022)
Yang Wang, Ailun Wang, Udayan Mohanty, Paul Charles Whitford
Precise Steric Features Control Aminoacyl-tRNA Accommodation on the Ribosome. The journal of physical chemistry. B 126 (42) (2022)
Raphael Vinicius Rodrigues Dias, Carolina Tatiani Alves Ferreira, Patricia Ann Jennings, Paul Charles Whitford, Leandro Cristante de Oliveira
Csk αC Helix: A Computational Analysis of an Essential Region for Conformational Transitions. The journal of physical chemistry. B 126 (50) (2022)
Raphael Vinicius Rodrigues Dias, Carolina Tatiani Alves Ferreira, Patricia Ann Jennings, Paul Charles Whitford, Leandro Cristante de Oliveira
Csk αC Helix: A Computational Analysis of an Essential Region for Conformational Transitions. The journal of physical chemistry. B 126 (50) (2022)
Asem Hassan, Sandra Byju, Paul Charles Whitford
The energetics of subunit rotation in the ribosome. Biophysical reviews 13 (6) (2021)
Frederico Campos Freitas, Gabriele Fuchs, Ronaldo Junio de Oliveira, Paul Charles Whitford
The dynamics of subunit rotation in a eukaryotic ribosome. Biophysica 1 (2) (2021)
Antonio Bento Oliveira Junior, Vinícius de Godoi Contessoto, Asem Hassan, Sandra Byju, Ailun Wang, Yang Wang, Esteban Dodero-Rojas, Udayan Mohanty, Jeffrey K Noel, José Nelson Onuchic, Paul Charles Whitford
SMOG 2 and OpenSMOG: Extending the limits of structure-based models. Protein science : a publication of the Protein Society (2021)
Paul Charles Whitford
Overview of the Biomolecular Association and Dynamics session at the 20th IUPAB congress, 45th Brazilian congress of SBBF, and the 50th annual meeting of SBBq. Biophysical reviews 13 (6) (2021)
Esteban Dodero-Rojas, José Nelson Onuchic, Paul Charles Whitford
Sterically confined rearrangements of SARS-CoV-2 Spike protein control cell invasion. eLife 10 (2021)
Daniela I Staquicini, Fenny H F Tang, Christopher Markosian, Virginia J Yao, Fernanda I Staquicini, Esteban Dodero-Rojas, Vinícius G Contessoto, Deodate Davis, Paul O'Brien, Nazia Habib, Tracey L Smith, Natalie Bruiners, Richard L Sidman, Maria Laura Gennaro, Edmund C Lattime, Steven K Libutti, Paul Charles Whitford, Stephen K Burley, José Nelson Onuchic, Wadih Arap, Renata Pasqualini
Design and proof of concept for targeted phage-based COVID-19 vaccination strategies with a streamlined cold-free supply chain. Proceedings of the National Academy of Sciences of the United States of America 118 (30) (2021)
Mariana Levi, Kelsey Walak, Ailun Wang, Udayan Mohanty, Paul Charles Whitford
A steric gate controls P/E hybrid-state formation of tRNA on the ribosome. Nature communications 11 (1) (2020)
Antonio Bento Oliveira Junior, Huan Yang, Paul Charles Whitford, Ingrid B S Martins
Distinguishing Biomolecular Pathways and Metastable States. Journal of chemical theory and computation 15 (11) (2019)
Mariana Levi, Paul Charles Whitford
Dissecting the Energetics of Subunit Rotation in the Ribosome. The journal of physical chemistry. B 123 (13) (2019)
Frederico Campos Freitas, Angelica Nakagawa Lima, Vinícius de Godoi Contessoto, Paul Charles Whitford, Ronaldo Junio de Oliveira
Drift-diffusion (DrDiff) framework determines kinetics and thermodynamics of two-state folding trajectory and tunes diffusion models. The Journal of chemical physics 151 (11) (2019)
Huan Yang, Prasad Bandarkar, Ransom Horne, Vitor B P Leite, Jorge Chahine, Paul Charles Whitford
Diffusion of tRNA inside the ribosome is position-dependent. The Journal of chemical physics 151 (8) (2019)
Huan Yang, Jonathan Perrier, Paul Charles Whitford
Disorder guides domain rearrangement in elongation factor Tu. Proteins 86 (10) (2018)
Kien Nguyen, Huan Yang, Paul Charles Whitford
How the Ribosomal A-Site Finger Can Lead to tRNA Species-Dependent Dynamics. The journal of physical chemistry. B 121 (13) (2017)
Huan Yang, Jeffrey K Noel, Paul Charles Whitford
Anisotropic Fluctuations in the Ribosome Determine tRNA Kinetics. The journal of physical chemistry. B 121 (47) (2017)