Identification and mechanistic basis of non-ACE2 blocking neutralizing antibodies from COVID-19 patients with deep RNA sequencing and molecular dynamics simulations
Fredericks A, East K, Shi Y, Liu J, Maschietto F, Ayala A, Cioffi W, Cohen M, Fairbrother W, Lefort C, Nau G, Levy M, Wang J, Batista V, Lisi G, Monaghan S. Identification and mechanistic basis of non-ACE2 blocking neutralizing antibodies from COVID-19 patients with deep RNA sequencing and molecular dynamics simulations. Frontiers In Molecular Biosciences 2022, 9: 1080964. PMID: 36589229, PMCID: PMC9800910, DOI: 10.3389/fmolb.2022.1080964.Peer-Reviewed Original ResearchCOVID-19 patientsSARS-CoV-2Severe acute respiratory syndrome coronavirus 2Acute respiratory syndrome coronavirus 2Respiratory syndrome coronavirus 2Spike proteinSevere COVID-19Intensive care unitSyndrome coronavirus 2RNA sequencingCertain immune responsesCOVID-19 infectionSARS-CoV-2 spike proteinEffectiveness of treatmentDeep RNA sequencingICU admissionCare unitSingle centerCoronavirus 2Peripheral bloodMultiple time pointsClinical dataImmune responseEarly infection timesSpecific NAbsHow to correct relative voxel scale factors for calculations of vector-difference Fourier maps in cryo-EM
Wang J, Liu J, Gisriel CJ, Wu S, Maschietto F, Flesher DA, Lolis E, Lisi GP, Brudvig GW, Xiong Y, Batista VS. How to correct relative voxel scale factors for calculations of vector-difference Fourier maps in cryo-EM. Journal Of Structural Biology 2022, 214: 107902. PMID: 36202310, PMCID: PMC10226527, DOI: 10.1016/j.jsb.2022.107902.Peer-Reviewed Original ResearchConceptsCryo-EM mapsAmino acid residuesAcid residuesCryo-electron microscopy mapIndividual amino acid residuesCyanobacteria Synechocystis spPCC 6803Synechocystis spMicroscopy mapsThermosynechococcus elongatusSARS-CoV-2 spike proteinLocal structural changesResiduesSpike proteinAtomic coordinatesElongatusSubunitsSpeciesProteinSpSimilar structureStructural changes