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10 results for “receptor-binding protein”
[Accompanying Dataset for PHIStruct] ColabFold-Predicted Structures of Receptor-Binding Proteins
<p><strong>This dataset contains protein structures, computationally predicted via <a href="https://doi.org/10.1038/s41592-022-01488-1">ColabFold</a>, of 19,081 non-redundant (i.e., with duplicates removed) receptor-binding proteins from 8,525 phages across 238 host genera</strong>. We identified these receptor-binding proteins based on GenBank annotations. For phage sequences without GenBank annotations, we employed a pipeline that uses the viral protein library <a href="https://doi.org/10.1093/nargab/lqab067">PHROG</a> and the machine learning model <a href="https://doi.org/10.3390/v14061329">PhageRBPdetect</a>. </p> <p>More details can be found in our paper <strong>"PHIStruct: Improving phage-host interaction prediction at low sequence similarity settings using structure-aware protein embeddings."</strong> The project page is <a href="https://github.com/bioinfodlsu/PHIStruct">https://github.com/bioinfodlsu/PHIStruct</a>. Our paper is published in <em>Bioinformatics:</em> <a href="https://doi.org/10.1093/bioinformatics/btaf016" rel="nofollow">https://doi.org/10.1093/bioinformatics/btaf016</a></p> <p>Our research was supported with Cloud TPUs from <a href="https://sites.research.google/trc/about/" rel="nofollow">Google's TPU Research Cloud (TRC)</a> and with computing resources from the <a href="https://docs.mlerp.cloud.edu.au/" rel="nofollow">Machine Learning eResearch Platform (MLeRP)</a> of Monash University, University of Queensland, and Queensland Cyber Infrastructure Foundation Ltd.</p>
Production and purification of receptor-binding domain (RBD) of the Spike protein from a transiently transfected mammalian cell
<p> </p> <p>Production and purification of recombinant receptor-binding domain (RBD) of the Spike protein from a transiently transfected EXPI293 mammalian cell .</p>
Data for: Viral receptor-binding protein evolves new function through mutations that cause trimer instability and functional heterogeneity
<p>When proteins evolve new activity, a concomitant decrease in stability is often observed because the mutations that confer new activity can destabilize the native fold. In the conventional model of protein evolution, reduced stability is considered a purely deleterious cost of molecular innovation because unstable proteins are prone to aggregation and are sensitive to environmental stressors. However, recent work has revealed that non-native, often unstable protein conformations play an important role in mediating evolutionary transitions, raising the question of whether instability can itself potentiate the evolution of new activity. We explored this question in a bacteriophage receptor binding protein (RBP) during host-range evolution. We studied the properties of the RBP of bacteriophage before and after host-range evolution and demonstrated that the evolved protein is relatively unstable and may exist in multiple conformations with unique receptor preferences. Through a combination of structural modeling and in vitro oligomeric state analysis, we found that the instability arises from mutations that interfere with trimer formation. This study raises the intriguing possibility that protein instability might play a previously unrecognized role in mediating host-range expansions in viruses.</p>
Data for: Viral receptor-binding protein evolves new function through mutations that cause trimer instability and functional heterogeneity
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Neonatal SARS-CoV-2 Anti-spike Protein Receptor-binding Domain Antibodies at Delivery
ClinicalTrials.gov study NCT05564884. IPD Sharing: NO. Countries: 1. Publications: 0.
SUMOylation regulates the protein network and chromatin accessibility at glucocorticoid receptor-binding sites [array]
GEO Series GSE64372. Homo sapiens. 12 samples. Type: Expression profiling by array.
A novel insulin receptor-binding protein enhances glucose uptake and glucose clearance in vitro and in vivo through triggering insulin receptor signaling pathway
GEO Series GSE48274. Mus musculus. 12 samples. Type: Expression profiling by array.
SUMOylation regulates the protein network and chromatin accessibility at glucocorticoid receptor-binding sites [sequencing]
GEO Series GSE64301. Homo sapiens. 81 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
SUMOylation regulates the protein network and chromatin accessibility at glucocorticoid receptor-binding sites
GEO Series GSE64373. Homo sapiens. 93 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by array.
Identification of a novel insulin receptor-binding protein from Momordica charantia by transcriptomic, proteomic, and docking analyses
GEO Series GSE39689. Mus musculus. 6 samples. Type: Expression profiling by array.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.