L. Shapiro

Cis inhibition of co-expressed DIPs and Dprs shapes neural development

The paper shows that DIPs and Dprs interact in cis within the same cells, regulating trans interactions and influencing neural development in Drosophila.

Antibodies that neutralize all current SARS-CoV-2 variants of concern by conformational locking

This study identifies two antibodies that neutralize all SARS-CoV-2 variants by locking the spike protein in a down conformation, showing a novel mechanism and potential for prophylaxis.

Free energy perturbation calculations of mutation effects on SARS-CoV-2 RBD::ACE2 binding affinity

This study uses free energy perturbation calculations to assess how mutations in SARS-CoV-2 RBD affect binding affinity to ACE2, showing FEP's superior accuracy in identifying stabilizing mutations.

Potent and pan-neutralization of SARS-CoV-2 variants of concern by DARPins

This paper reports the development of two DARPins, FSR16m and FSR22, that potently neutralize SARS-CoV-2 variants, including emerging ones, with efficacy comparable to therapeutic antibodies.

Vaccine-elicitation of cross-group neutralizing protective antibodies to influenza A viruses

This study shows that co-immunization with stem immunogens from group 1 and 2 influenza A HAs elicits cross-group neutralizing antibodies and protective immunity in multiple animal models.

Structural basis for antibody resistance to SARS-CoV-2 omicron variant

The paper reports a cryo-EM structure of the SARS-CoV-2 Omicron spike protein, revealing how mutations alter its conformation and enable antibody resistance.

Isolation and comparative analysis of antibodies that broadly neutralize sarbecoviruses

The paper identifies a human monoclonal antibody that neutralizes all tested sarbecoviruses and describes a new antibody class with potential for pandemic preparedness.

A monoclonal antibody that neutralizes SARS-CoV-2 variants, SARS-CoV, and other sarbecoviruses

This paper identifies a monoclonal antibody, 2-36, that neutralizes SARS-CoV-2 variants, SARS-CoV, and other sarbecoviruses, with a conserved epitope in the RBD identified through cryo-EM.

How clustered protocadherin binding specificity is tuned for neuronal self/non-self-recognition

This study investigates cPcdh interactions, showing promiscuous cis dimers and precise trans homophilic interactions, supporting their role in neuronal self/non-self-recognition.

Neutralizing antibody 5-7 defines a distinct site of vulnerability in SARS-CoV-2 spike N-terminal domain

This paper reports the cryo-EM structure of antibody 5-7, which binds to a distinct site in the SARS-CoV-2 spike NTD, showing neutralization resistance to variants of concern.

Increased Resistance of SARS-CoV-2 Variant P.1 to Antibody Neutralization

This study shows the SARS-CoV-2 P.1 variant is more resistant to antibody neutralization than previous variants, but less affected by vaccine-induced immunity.

Structural Basis for Accommodation of Emerging B.1.351 and B.1.1.7 Variants by Two Potent SARS-CoV-2 Neutralizing Antibodies

This study reports cryo-EM structures of two SARS-CoV-2 neutralizing antibodies bound to spike proteins of emerging variants, showing they retain potency despite RBD mutations.

A modular platform for engineering function ofnatural and synthetic biomolecular condensates

The paper identifies design principles for biomolecular condensates using PopZ and applies them to create synthetic condensates in human cells.

Antibody Resistance of SARS-CoV-2 Variants B.1.351 and B.1.1.7

This study evaluates the neutralization resistance of SARS-CoV-2 variants B.1.1.7 and B.1.351 to monoclonal antibodies and sera, finding increased resistance in B.1.351.

Modular basis for potent SARS-CoV-2 neutralization by a prevalent VH1-2-derived antibody class

The paper determines structures of three VH1-2-derived antibodies in complex with SARS-CoV-2 spike, revealing modular recognition mechanisms and conformational changes.

Potent SARS-CoV-2 Neutralizing Antibodies Directed Against Spike N-Terminal Domain Target a Single Supersite

This study identifies potent SARS-CoV-2 neutralizing antibodies targeting the N-terminal domain (NTD) and reveals they bind a common supersite on the spike protein.

ATAC-seq reveals megabase-scale domains of a bacterial nucleoid

The paper uses ATAC-seq to reveal megabase-scale domains of bacterial nucleoids in Caulobacter crescentus, showing they are shaped by DNA gyrase and GapR.

Paired heavy and light chain signatures contribute to potent SARS-CoV-2 neutralization in public antibody responses

This study identifies a public antibody class, IGHV3-53/3-66, with potent SARS-CoV-2 neutralization capabilities through paired heavy and light chain interactions.

ATP-responsive biomolecular condensates tune bacterial kinase signaling

The paper shows ATP depletion enhances kinase activity via phase separation in bacterial condensates, enabling robust signaling under nutrient stress.

Potent Neutralizing Antibodies Directed to Multiple Epitopes on SARS-CoV-2 Spike

The paper isolates and characterizes 61 SARS-CoV-2-neutralizing monoclonal antibodies from infected patients, identifying potent antibodies targeting multiple epitopes on the spike protein.

Cryo-EM Structures Delineate a pH-Dependent Switch that Mediates Endosomal Positioning of SARS-CoV-2 Spike Receptor-Binding Domains

This paper uses cryo-EM to show how SARS-CoV-2 spike protein undergoes pH-dependent structural changes that affect ACE2 binding and antibody evasion.

Structure-Based Design with Tag-Based Purification and In-Process Biotinylation Enable Streamlined Development of SARS-CoV-2 Spike Molecular Probes

The paper develops biotin-labeled SARS-CoV-2 spike molecular probes using structure-based design and purification methods, achieving high yields and enabling antibody characterization.

DIP/Dpr interactions and the evolutionary design of specificity in protein families

The paper investigates how specificity in DIP/Dpr protein interactions is achieved through negative constraints, using computational and experimental methods.

A Bacterial Surface Layer Protein Exploits Multi-step Crystallization for Rapid Self-assembly

This paper shows a bacterial surface layer protein uses a multi-step pathway with a nucleation domain to rapidly crystallize, enabling efficient 2D self-assembly on cell surfaces.

Continuous, Topologically Guided Protein Crystallization Controls Bacterial Surface Layer Self-Assembly

This study shows that protein self-assembly alone can form and maintain bacterial surface layers, guided by surface topology without enzymatic assistance.

The elasticity of individual protocadherin 15 molecules implicates cadherins as the gating springs for hearing

The paper shows that individual PCDH15 molecules act as entropic springs, contributing to the gating mechanism of hair cell transduction channels by modulating stiffness through tension and Ca2+ concentration.

Integration of cell cycle signals by multi-PAS domain kinases

The paper shows how multi-PAS domain kinases integrate subcellular signals to control kinase-phosphatase activity in Caulobacter crescentus.

Phospho-signal flow from a pole-localized microdomain spatially patterns transcription factor activity

The paper studies how a microdomain at the cell pole of Caulobacter crescentus spatially patterns transcription factor activity through phospho-signaling.

Routine Single Particle CryoEM Sample and Grid Characterization by Tomography

This study uses fiducial-less tomography to analyze cryoEM grids and finds that 90% of particles are adsorbed to air-water interfaces, impacting protein structure and single particle analysis.

Spatial organization and dynamics of RNase E and ribosomes in Caulobacter crescentus

This study uses microscopy to show RNase E and ribosomes are spatially organized in Caulobacter crescentus, with clustering linked to RNA availability and rRNA gene location.