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Phosphorylation of innate immune adaptor proteins MAVS, STING, and TRIF induces IRF3 activation
A common signaling mechanism used by all three types of innate immune receptor-adaptor protein pairs to activate IRF3 and generate IFNs is reported, which is important because cells must regulate their IFN production carefully to avoid inflammation and autoimmunity.
Accurate prediction of protein structures and interactions using a 3-track neural network
A three-track network produces structure predictions with accuracies approaching those of DeepMind in CASP14, enables the rapid solution of challenging X-ray crystallography and cryo-EM structure modeling problems, and provides insights into the functions of proteins of currently unknown structure.
Genomes of skipper butterflies reveal extensive convergence of wing patterns
The genomes of 250 representative species of skippers reveal rampant inconsistencies between their current classification and a genome-based phylogeny, and a dated genomic tree is used to define tribes, overhaul genera, and display convergence in wing patterns that fooled researchers for decades.
CASP9 assessment of free modeling target predictions
An overview of the ninth round of Critical Assessment of Protein Structure Prediction (CASP9) “Template free modeling” category (FM) is presented, highlighting a trend for human experts to act as “meta predictors” by correctly selecting among models produced by the top‐performing automated servers.
Tiger Swallowtail Genome Reveals Mechanisms for Speciation and Caterpillar Chemical Defense
Protein interaction networks revealed by proteome coevolution
A computational approach reveals hundreds of previously uncharacterized PPIs in E. coli and M. tuberculosis that both add components to known protein complexes and networks and establish the existence of new ones.
Protein contact prediction using metagenome sequence data and residual neural networks
- Qi Wu, Zhenling Peng, I. Anishchenko, Q. Cong, D. Baker, Jianyi Yang
- Computer Science, BiologyBioinform.
Based on the improved MSA constructed from the metagenome sequence data, MapPred is developed, a new deep learning-based contact prediction method that is complementary and comparable the state-of-the-art methods.
Acute Hepatopancreatic Necrosis Disease-Causing Vibrio parahaemolyticus Strains Maintain an Antibacterial Type VI Secretion System with Versatile Effector Repertoires
The genome sequences of clinical, non-AHPND, and AHPND strains are analyzed to characterize their repertoires of key virulence determinants and it is proposed that T6SS1 provides a selective advantage during shrimp infections.
Accurate prediction of protein structures and interactions using a 3-track network
The 3-track network produces structure predictions with accuracies approaching those of DeepMind in CASP14, enables rapid solution of challenging X-ray crystallography and cryo-EM structure modeling problems, and provides insights into the functions of proteins of currently unknown structure.
Functional expression and characterization of the envelope glycoprotein E1E2 heterodimer of hepatitis C virus
The expressed E1E2 heterodimer is applied to examine the interactions with the known HCV receptors, neutralizing antibodies as well as the inhibition of HCV infection, confirming the functionality of the E 1E2heterodimer and the binding profiles of E1e2 with the cellular receptors.