Sub-Picomolar Detection of SARS-CoV-2 RBD via Computationally-Optimized Peptide Beacons
Tripathy, S. P.; Ponnapati, M.; Jacobson, J. M.; Chatterjee, P.
Show abstract
The novel coronavirus SARS-CoV-2 continues to pose a significant global health threat. Along with vaccines and targeted therapeutics, there is a critical need for rapid diagnostic solutions. In this work, we employ deep learning-based protein design to engineer molecular beacons that function as conformational switches for high sensitivity detection of the SARS-CoV-2 spike protein receptor binding domain (S-RBD). The beacons contain two peptides, together forming a heterodimer, and a binding ligand between them to detect the presence of S-RBD. In the absence of S-RBD (OFF), the peptide beacons adopt a closed conformation that opens when bound to the S-RBD and produces a fluorescence signal (ON), utilizing a fluorophore-quencher pair at the two ends of the heterodimer stems. Two candidate beacons, C17LC21 and C21LC21, can detect the S-RBD with limits of detection (LoD) in the sub-picomolar range. We envision that these beacons can be easily integrated with on-chip optical sensors to construct a point-of-care diagnostic platform for SARS-CoV-2.
Matching journals
The top 11 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Reduction of protein disulfide isomerase results in open conformations and stimulates dynamic exchange between structural ensembles 95%
- Targeting the Protein-Protein Interaction Between the CDC37 Co-Chaperone and Client Kinases by an Allosteric RAF Dimer Breaker 95%
- Facile detection of peptide-protein interactions using an electrophoretic crosslinking shift assay 95%
Similar papers in this journal
- Peptide-antibody Fusions Engineered by Phage Display Exhibit Ultrapotent and Broad Neutralization of SARS-CoV-2 Variants 95%
- A Novel Regioselective Approach to Cyclize Phage-Displayed Peptides in Combination with Epitope-Directed Selection to Identify a Potent Neutralizing Macrocyclic Peptide for SARS-CoV-2 93%
- Development of a new DHFR-based destabilizing domain with enhanced basal turnover and applicability in mammalian systems 93%
Similar papers in this journal
- Polyamines Mediate Folding of Primordial Hyper-Acidic Helical Proteins 93%
- Identification and characterization of a bacterial periplasmic solute binding protein that binds L-amino acid amides. 92%
- Engineered chimeras unveil swappable modular features of fatty acid and polyketide synthase acyl carrier proteins 92%
Similar papers in this journal
- Direct Optical Detection of Factor Xa Activity in Minimally Processed Whole Blood 92%
- Genetically Encoded RNA-based Bioluminescence Resonance Energy Transfer (BRET) Sensors 92%
- tdLanYFP, a yellow, bright, photostable and pH insensitive fluorescent protein for live cell imaging and FRET-based sensing strategies 92%
Similar papers in this journal
- Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis 93%
- A self-assembling cross-protective antigen against multiple Gram-positive nosocomial pathogens 92%
- Experimental and analytical framework for ''mix-and-read'' assays based on split luciferase 92%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.