Tushar Modi
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View article: Physiological cost of antibiotic resistance: Insights from a ribosome variant in bacteria
Physiological cost of antibiotic resistance: Insights from a ribosome variant in bacteria Open
Antibiotic-resistant ribosome variants arise spontaneously in bacterial populations; however, their impact on the overall bacterial physiology remains unclear. We studied the naturally arising antibiotic-resistant L22* ribosome variant of …
View article: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 spike (S) protein. With this approach, we first…
View article: Author response: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Author response: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
View article: Author Response: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Author Response: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: Reviewer #2 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Reviewer #2 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: Reviewer #3 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Reviewer #3 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: RNA-induced Allosteric Coupling Drives Viral Capsid Assembly
RNA-induced Allosteric Coupling Drives Viral Capsid Assembly Open
Understanding the mechanisms by which single-stranded RNA viruses regulate capsid assembly around their RNA genomes has become increasingly important for the development of both antiviral treatments and drug delivery systems. In this study…
View article: Reviewer #1 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Reviewer #1 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: Reviewer #2 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Reviewer #2 (Public Review): Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 spike (S) protein. With this approach, we first…
View article: Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics
Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics Open
We integrate evolutionary predictions based on the neutral theory of molecular evolution with protein dynamics to generate mechanistic insight into the molecular adaptations of the SARS-COV-2 Spike (S) protein. With this approach, we first…
View article: RNA-induced allosteric coupling drives viral capsid assembly in bacteriophage MS2
RNA-induced allosteric coupling drives viral capsid assembly in bacteriophage MS2 Open
Understanding the mechanisms by which single-stranded RNA viruses regulate capsid assembly around their RNA genomes has become increasingly important for the development of both antiviral treatments and drug delivery systems. Here, we inve…
View article: Vibrational density of states capture the role of dynamic allostery in protein evolution
Vibrational density of states capture the role of dynamic allostery in protein evolution Open
View article: Hinge-shift mechanism as a protein design principle for the evolution of β-lactamases from substrate promiscuity to specificity
Hinge-shift mechanism as a protein design principle for the evolution of β-lactamases from substrate promiscuity to specificity Open
View article: Information Propagation in Time through Allosteric Signaling
Information Propagation in Time through Allosteric Signaling Open
View article: Protein folding stability and binding interactions through the lens of evolution: a dynamical perspective
Protein folding stability and binding interactions through the lens of evolution: a dynamical perspective Open
View article: What are the Design Principles for Evolution from Promiscuous to Substrate Specificity?
What are the Design Principles for Evolution from Promiscuous to Substrate Specificity? Open
View article: Allostery Modulates Resistance Driver Mutations in TEM-1
Allostery Modulates Resistance Driver Mutations in TEM-1 Open
View article: Mutations Utilize Dynamic Allostery to Confer Resistance in TEM-1 β-lactamase
Mutations Utilize Dynamic Allostery to Confer Resistance in TEM-1 β-lactamase Open
β-lactamases are enzymes produced by bacteria to hydrolyze β-lactam antibiotics as a common mechanism of resistance. Evolution in such enzymes has been rendering a wide variety of antibiotics impotent, therefore posing a major threat. Clin…
View article: Ancient thioredoxins evolved to modern-day stability–function requirement by altering native state ensemble
Ancient thioredoxins evolved to modern-day stability–function requirement by altering native state ensemble Open
Thioredoxins (THRXs)—small globular proteins that reduce other proteins—are ubiquitous in all forms of life, from Archaea to mammals. Although ancestral thioredoxins share sequential and structural similarity with the modern-day (extant) h…
View article: Ancient Thioredoxins Evolved to Modern Day Stability-Function Requirement by Altering Native State Ensemble
Ancient Thioredoxins Evolved to Modern Day Stability-Function Requirement by Altering Native State Ensemble Open
Thioredoxins (Thrxs) - small globular proteins that reduce other proteins - are ubiquitous in all forms of life, from archaea to mammals. Although ancestral Thioredoxins share sequential and structural similarity with the modern day (extan…
View article: Ancient Thioredoxins Evolved to Modern Day Stability-Function Requirement by Altering Native State Ensemble
Ancient Thioredoxins Evolved to Modern Day Stability-Function Requirement by Altering Native State Ensemble Open
View article: Supplementary material from "Ancient thioredoxins evolved to modern-day stability–function requirement by altering native state ensemble"
Supplementary material from "Ancient thioredoxins evolved to modern-day stability–function requirement by altering native state ensemble" Open
Thioredoxins (Thrxs)—small globular proteins that reduce other proteins—are ubiquitous in all forms of life, from archaea to mammals. Although ancestral thioredoxins share sequential and structural similarity with the modern-day (extant) h…
View article: Intrinsically Disordered Protein Dynamics Uncovered through Dynamic Flexibility Index (DFI) Analysis
Intrinsically Disordered Protein Dynamics Uncovered through Dynamic Flexibility Index (DFI) Analysis Open
View article: On the rupture of DNA molecule
On the rupture of DNA molecule Open
Using Langevin Dynamic simulations, we study effects of the shear force on the rupture of a double stranded DNA molecule. The model studied here contains two single diblock copolymers interacting with each other. The elastic constants of i…