Structural-Dynamics and Binding Analysis of RBD from SARS-CoV-2 Variants of Concern (VOCs) and GRP78 Receptor Revealed Basis for Higher Infectivity

A model for pH coupling of the SARS-CoV-2 spike protein open/closed equilibrium

(2021) Jim Warwicker   BRIEFINGS IN BIOINFORMATICS

Risk of mortality in patients infected with SARS-CoV-2 variant of concern 202012/1: matched cohort study

(2021) Robert Challen et al.   BMJ-British Medical Journal

The chaperone GRP78 is a host auxiliary factor for SARS-CoV-2 and GRP78 depleting antibody blocks viral entry and infection

(2021) Anthony J. Carlos et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Higher infectivity of the SARS‐CoV‐2 new variants is associated with K417N/T, E484K, and N501Y mutants: An insight from structural data

(2021) Abbas Khan et al.   JOURNAL OF CELLULAR PHYSIOLOGY

Recognition through GRP78 is enhanced in the UK, South African, and Brazilian variants of SARS-CoV-2; An in silico perspective

(2021) Ibrahim M. Ibrahim et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Preliminary Structural Data Revealed That the SARS‐CoV‐2 B.1.617 Variant's RBD Binds to ACE2 Receptor Stronger Than the Wild Type to Enhance the Infectivity

(2021) Abbas Khan. et al.   CHEMBIOCHEM

SARS-CoV-2 new variants: Characteristic features and impact on the efficacy of different vaccines

(2021) Abbas Khan et al.   BIOMEDICINE & PHARMACOTHERAPY

Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein

(2020) Alexandra C. Walls et al.   CELL

COVID-19 spike-host cell receptor GRP78 binding site prediction

(2020) Ibrahim M. Ibrahim et al.   JOURNAL OF INFECTION

Deep mutational scanning of SARS-CoV-2 receptor binding domain reveals constraints on folding and ACE2 binding

(2020) Tyler N. Starr et al.   CELL

Gene expression and in situ protein profiling of candidate SARS-CoV-2 receptors in human airway epithelial cells and lung tissue

(2020) Jennifer A. Aguiar et al.   EUROPEAN RESPIRATORY JOURNAL

Distinct conformational states of SARS-CoV-2 spike protein

(2020) Yongfei Cai et al.   SCIENCE

Structural and Functional Analysis of the D614G SARS-CoV-2 Spike Protein Variant

(2020) Leonid Yurkovetskiy et al.   CELL

Janus sword actions of chloroquine and hydroxychloroquine against COVID-19

(2020) Xuesong Chen et al.   CELLULAR SIGNALLING

Receptor binding and priming of the spike protein of SARS-CoV-2 for membrane fusion

(2020) Donald J. Benton et al.   NATURE

UCSF ChimeraX : Structure visualization for researchers, educators, and developers

(2020) Eric F. Pettersen et al.   PROTEIN SCIENCE

Human recombinant soluble ACE2 in severe COVID-19

(2020) Alexander Zoufaly et al.   Lancet Respiratory Medicine

SARS-CoV-2 Spike-Heat Shock Protein A5 (GRP78) Recognition may be Related to the Immersed Human Coronaviruses

(2020) Abdo A. Elfiky   Frontiers in Pharmacology

Middle East respiratory syndrome coronavirus and bat coronavirus HKU9 both can utilize GRP78 for attachment onto host cells

(2018) Hin Chu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Role of framework mutations and antibody flexibility in the evolution of broadly neutralizing antibodies

(2018) Victor Ovchinnikov et al.   eLife

Cryo-EM structure of the SARS coronavirus spike glycoprotein in complex with its host cell receptor ACE2

(2018) Wenfei Song et al.   PLoS Pathogens

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

Interaction entropy for protein-protein binding

(2017) Zhaoxi Sun et al.   JOURNAL OF CHEMICAL PHYSICS

PRODIGY: a web server for predicting the binding affinity of protein–protein complexes

(2016) Li C. Xue et al.   BIOINFORMATICS

Somatic Hypermutation-Induced Changes in the Structure and Dynamics of HIV-1 Broadly Neutralizing Antibodies

(2016) Thaddeus M. Davenport et al.   STRUCTURE

Entropy-Enthalpy Compensation: Role and Ramifications in Biomolecular Ligand Recognition and Design

(2013) John D. Chodera et al.   Annual Review of Biophysics

PTRAJ and CPPTRAJ: Software for Processing and Analysis of Molecular Dynamics Trajectory Data

(2013) Daniel R. Roe et al.   Journal of Chemical Theory and Computation

Routine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 2. Explicit Solvent Particle Mesh Ewald

(2013) Romelia Salomon-Ferrer et al.   Journal of Chemical Theory and Computation

An overview of the Amber biomolecular simulation package

(2012) Romelia Salomon-Ferrer et al.   Wiley Interdisciplinary Reviews-Computational Molecular Science

Assessing the Performance of the MM/PBSA and MM/GBSA Methods. 1. The Accuracy of Binding Free Energy Calculations Based on Molecular Dynamics Simulations

(2010) Tingjun Hou et al.   Journal of Chemical Information and Modeling

The RCSB Protein Data Bank: redesigned web site and web services

(2010) P. W. Rose et al.   NUCLEIC ACIDS RESEARCH