Peter Kasson

Structural prediction of chimeric immunogen candidates to elicit targeted antibodies against betacoronaviruses

Simpson, Jamel; Kasson, Peter M.

Ingår i PloS Computational Biology, 2025

• DOI för Structural prediction of chimeric immunogen candidates to elicit targeted antibodies against betacoronaviruses
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Key interaction networks: Identifying evolutionarily conserved non-covalent interaction networks across protein families

Yehorova, Dariia; Crean, Rory M.; Kasson, Peter M.; Kamerlin, Shina C. L.

Ingår i Protein Science, 2024

• DOI för Key interaction networks: Identifying evolutionarily conserved non-covalent interaction networks across protein families
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Using residue interaction networks to understand protein function and evolution and to engineer new proteins

Yehorova, Dariia; Di Geronimo, Bruno; Robinson, Michael; Kasson, Peter M. et al.

Ingår i Current opinion in structural biology, 2024

• DOI för Using residue interaction networks to understand protein function and evolution and to engineer new proteins
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Friends and relatives: insight into conformational regulation from orthologues and evolutionary lineages using KIF and KIN

Yehorova, Dariia; Crean, Rory M.; Kasson, Peter M.; Kamerlin, Shina Caroline Lynn

Ingår i Faraday discussions, s. 341-353, 2024

• DOI för Friends and relatives: insight into conformational regulation from orthologues and evolutionary lineages using KIF and KIN
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KIF-Key Interactions Finder: A program to identify the key molecular interactions that regulate protein conformational changes

Crean, Rory M.; Slusky, Joanna S. G.; Kasson, Peter M.; Kamerlin, Shina C. Lynn

Ingår i Journal of Chemical Physics, 2023

• DOI för KIF-Key Interactions Finder: A program to identify the key molecular interactions that regulate protein conformational changes
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Structural prediction of chimeric immunogen candidates to elicit targeted antibodies against betacoronaviruses

Simpson, Jamel; Kasson, Peter M.

Ingår i PloS Computational Biology, 2025

• DOI för Structural prediction of chimeric immunogen candidates to elicit targeted antibodies against betacoronaviruses
• Ladda ner fulltext (pdf) av Structural prediction of chimeric immunogen candidates to elicit targeted antibodies against betacoronaviruses

Key interaction networks: Identifying evolutionarily conserved non-covalent interaction networks across protein families

Yehorova, Dariia; Crean, Rory M.; Kasson, Peter M.; Kamerlin, Shina C. L.

Ingår i Protein Science, 2024

• DOI för Key interaction networks: Identifying evolutionarily conserved non-covalent interaction networks across protein families
• Ladda ner fulltext (pdf) av Key interaction networks: Identifying evolutionarily conserved non-covalent interaction networks across protein families

Using residue interaction networks to understand protein function and evolution and to engineer new proteins

Yehorova, Dariia; Di Geronimo, Bruno; Robinson, Michael; Kasson, Peter M. et al.

Ingår i Current opinion in structural biology, 2024

• DOI för Using residue interaction networks to understand protein function and evolution and to engineer new proteins
• Ladda ner fulltext (pdf) av Using residue interaction networks to understand protein function and evolution and to engineer new proteins

Friends and relatives: insight into conformational regulation from orthologues and evolutionary lineages using KIF and KIN

Yehorova, Dariia; Crean, Rory M.; Kasson, Peter M.; Kamerlin, Shina Caroline Lynn

Ingår i Faraday discussions, s. 341-353, 2024

• DOI för Friends and relatives: insight into conformational regulation from orthologues and evolutionary lineages using KIF and KIN
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KIF-Key Interactions Finder: A program to identify the key molecular interactions that regulate protein conformational changes

Crean, Rory M.; Slusky, Joanna S. G.; Kasson, Peter M.; Kamerlin, Shina C. Lynn

Ingår i Journal of Chemical Physics, 2023

• DOI för KIF-Key Interactions Finder: A program to identify the key molecular interactions that regulate protein conformational changes
• Ladda ner fulltext (pdf) av KIF-Key Interactions Finder: A program to identify the key molecular interactions that regulate protein conformational changes

The ACE2 receptor accelerates but is not biochemically required for SARS-CoV-2 membrane fusion

Cervantes, Marcos; Hess, Tobin; Morbioli, Giorgio G. G.; Sengar, Anjali et al.

Ingår i Chemical Science, s. 6997-7004, 2023

• DOI för The ACE2 receptor accelerates but is not biochemically required for SARS-CoV-2 membrane fusion
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Single-Virus Fusion Measurements Reveal Multiple Mechanistically Equivalent Pathways for SARS-CoV-2 Entry

Sengar, Anjali; Cervantes, Marcos; Bondalapati, Sai T.; Hess, Tobin et al.

Ingår i Journal of Virology, 2023

• DOI för Single-Virus Fusion Measurements Reveal Multiple Mechanistically Equivalent Pathways for SARS-CoV-2 Entry

Mechanistic dissection of antibody inhibition of influenza entry yields unexpected heterogeneity

Sengar, Anjali; Cervantes, Marcos; Kasson, Peter M.

Ingår i Biophysical Journal, s. 1996-2006, 2023

• DOI för Mechanistic dissection of antibody inhibition of influenza entry yields unexpected heterogeneity
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gmxapi: A GROMACS-native Python interface for molecular dynamics with ensemble and plugin support

Irrgang, M. Eric; Davis, Caroline; Kasson, Peter M.

Ingår i PloS Computational Biology, 2022

• DOI för gmxapi: A GROMACS-native Python interface for molecular dynamics with ensemble and plugin support
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Measuring single-virus fusion kinetics using an assay for nucleic acid exposure

Giraldo, Ana M. Villamil; Mannsverk, Steinar; Kasson, Peter M.

Ingår i Biophysical Journal, s. 4467-4475, 2022

• DOI för Measuring single-virus fusion kinetics using an assay for nucleic acid exposure
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Influenza Virus Membrane Fusion Is Promoted by the Endosome-Resident Phospholipid Bis(monoacylglycero)phosphate

Mannsverk, Steinar; Giraldo, Ana M. Villamil; Kasson, Peter M.

Ingår i Journal of Physical Chemistry B, s. 10445-10451, 2022

• DOI för Influenza Virus Membrane Fusion Is Promoted by the Endosome-Resident Phospholipid Bis(monoacylglycero)phosphate
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The N-terminal Helix-Turn-Helix Motif of Transcription Factors MarA and Rob Drives DNA Recognition

Corbella Morató, Marina; Liao, Qinghua; Moreira, Catia; Parracino, Antonietta et al.

Ingår i Journal of Physical Chemistry B, s. 6791-6806, 2021

• DOI för The N-terminal Helix-Turn-Helix Motif of Transcription Factors MarA and Rob Drives DNA Recognition
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Inference of Joint Conformational Distributions from Separately Acquired Experimental Measurements

Hays, Jennifer M.; Boland, Emily; Kasson, Peter M.

Ingår i The Journal of Physical Chemistry Letters, s. 1606-1611, 2021

• DOI för Inference of Joint Conformational Distributions from Separately Acquired Experimental Measurements

Precise Triggering and Chemical Control of Single-Virus Fusion within Endosomes

Haldar, Sourav; Okamoto, Kenta; Dunning, Rebecca A.; Kasson, Peter M.

Ingår i Journal of Virology, 2021

• DOI för Precise Triggering and Chemical Control of Single-Virus Fusion within Endosomes

Influenza hemagglutinin drives viral entry via two sequential intramembrane mechanisms

Pabis, Anna; Rawle, Robert J.; Kasson, Peter. M.

Ingår i Proceedings of the National Academy of Sciences of the United States of America, s. 7200-7207, 2020

• DOI för Influenza hemagglutinin drives viral entry via two sequential intramembrane mechanisms

Bilayer-Coated Nanoparticles Reveal How Influenza Viral Entry Depends on Membrane Deformability but Not Curvature

Giraldo, Ana M. Villamil; Kasson, P. M.

Ingår i The Journal of Physical Chemistry Letters, s. 7190-7196, 2020

• DOI för Bilayer-Coated Nanoparticles Reveal How Influenza Viral Entry Depends on Membrane Deformability but Not Curvature

Acquired Functional Capsid Structures in Metazoan Totivirus-like dsRNA Virus

Okamoto, Kenta; Ferreira, Ricardo J.; Larsson, Daniel S D; Maia, Filipe R.N.C. et al.

Ingår i Structure, s. 888-+, 2020

• DOI för Acquired Functional Capsid Structures in Metazoan Totivirus-like dsRNA Virus

Managing Coronavirus Disease 2019 Spread With Voluntary Public Health Measures: Sweden as a Case Study for Pandemic Control

Kamerlin, Shina C. L.; Kasson, Peter M.

Ingår i Clinical Infectious Diseases, s. 3174-3181, 2020

• DOI för Managing Coronavirus Disease 2019 Spread With Voluntary Public Health Measures: Sweden as a Case Study for Pandemic Control
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Long Time-Scale Atomistic Simulations of the Structure and Dynamics of Transcription Factor-DNA Recognition

Liao, Qinghua; Lüking, Malin; Krueger, Dennis M.; Deindl, Sebastian et al.

Ingår i Journal of Physical Chemistry B, s. 3576-3590, 2019

• DOI för Long Time-Scale Atomistic Simulations of the Structure and Dynamics of Transcription Factor-DNA Recognition
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Detecting and Controlling Dye Effects in Single-Virus Fusion Experiments

Rawle, Robert J.; Giraldo, Ana M. Villamil; Boxer, Steven G.; Kasson, Peter M.

Ingår i Biophysical Journal, s. 445-452, 2019

• DOI för Detecting and Controlling Dye Effects in Single-Virus Fusion Experiments

Hybrid Refinement of Heterogeneous Conformational Ensembles Using Spectroscopic Data

Hays, Jennifer M.; Cafiso, David S.; Kasson, P. M.

Ingår i The Journal of Physical Chemistry Letters, s. 3410-3414, 2019

• DOI för Hybrid Refinement of Heterogeneous Conformational Ensembles Using Spectroscopic Data

Antibiotic Uptake Across Gram-Negative Outer Membranes: Better Predictions Towards Better Antibiotics

Ferreira, Ricardo J.; Kasson, P. M.

Ingår i ACS - Infectious Diseases, s. 2096-2104, 2019

• DOI för Antibiotic Uptake Across Gram-Negative Outer Membranes: Better Predictions Towards Better Antibiotics

Simulations and Experiments Show a Mechanistic Role for Influenza Fusion Peptides in Membrane Bending and Fusion Stoichiometry

Kasson, Peter

Ingår i Biophysical Journal, 2018

Refinement of highly flexible protein structures using simulation-guided spectroscopy

Hays, Jennifer M.; Kieber, Marissa K.; Li, Jason Z.; Han, Ji In et al.

Ingår i Angewandte Chemie International Edition, s. 17110-17114, 2018

• DOI för Refinement of highly flexible protein structures using simulation-guided spectroscopy
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Adaptive ensemble simulations of biomolecules

Kasson, Peter; Jha, Shantenu

Ingår i Current opinion in structural biology, s. 87-94, 2018

• DOI för Adaptive ensemble simulations of biomolecules
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gmxapi: a high-level interface for advanced control and extension of molecular dynamics simulations.

Irrgang, M Eric; Hays, Jennifer M; Kasson, Peter M.

Ingår i Bioinformatics, s. 3945-3947, 2018

• DOI för gmxapi: a high-level interface for advanced control and extension of molecular dynamics simulations.
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Conformational Intermediate That Controls KPC-2 Catalysis and Beta-Lactam Drug Resistance

Cortina, George A.; Hays, Jennifer M.; Kasson, P. M.

Ingår i ACS Catalysis, s. 2741-2747, 2018

• DOI för Conformational Intermediate That Controls KPC-2 Catalysis and Beta-Lactam Drug Resistance

Cholesterol enhances influenza binding avidity by controlling nanoscale receptor clustering

Goronzy, I. N.; Rawle, R. J.; Boxer, S. G.; Kasson, Peter M.

Ingår i Chemical Science, s. 2340-2347, 2018

• DOI för Cholesterol enhances influenza binding avidity by controlling nanoscale receptor clustering
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pH Dependence of Zika Membrane Fusion Kinetics Reveals an Off-Pathway State

Rawle, Robert J.; Webster, Elizabeth R.; Jelen, Marta; Kasson, Peter M. et al.

Ingår i ACS CENTRAL SCIENCE, s. 1503-1510, 2018

• DOI för pH Dependence of Zika Membrane Fusion Kinetics Reveals an Off-Pathway State
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Influenza Hemifusion Phenotype Depends on Membrane Context: Differences in Cell-Cell and Virus-Cell Fusion

Zawada, Katarzyna E.; Okamoto, Kenta; Kasson, Peter M.

Ingår i Journal of Molecular Biology, s. 594-601, 2018

• DOI för Influenza Hemifusion Phenotype Depends on Membrane Context: Differences in Cell-Cell and Virus-Cell Fusion

Understanding allosteric modulation of beta lactamase function and bacterial drug resistance

Kasson, Peter; Cortina, George; Latallo, Malgorzata

Ingår i Abstracts of Papers of the American Chemical Society, 2017

Predicting allosteric mutants that increase activity of a major antibiotic resistance enzyme

Latallo, M. J.; Cortina, G. A.; Faham, S.; Nakamoto, R. K. et al.

Ingår i Chemical Science, s. 6484-6492, 2017

• DOI för Predicting allosteric mutants that increase activity of a major antibiotic resistance enzyme
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Computational methods to study enveloped viral entry

Tuerkova, Alzbeta; Kasson, Peter M.

Ingår i Biochemical Society Transactions, s. 2527-2537, 2021

• DOI för Computational methods to study enveloped viral entry

Infectious Disease Research in the Era of Big Data

Kasson, Peter M.

Ingår i ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 3, 2020, s. 43-59, ANNUAL REVIEWS, 2020

• DOI för Infectious Disease Research in the Era of Big Data