AIMC Topic: Protein Interaction Domains and Motifs

Clear Filters Showing 1 to 10 of 59 articles

LGS-PPIS: A Local-Global Structural Information Aggregation Framework for Predicting Protein-Protein Interaction Sites.

Proteins Nov 9, 2024
Exploring protein-protein interaction sites (PPIS) is of significance to elucidating the intrinsic mechanisms of diverse biological processes. On this basis, recent studies have applied deep learning-based technologies to overcome the high cost of we...
Humans Algorithms Databases, Protein Binding Sites Protein Interaction Mapping Protein Interaction Domains and Motifs Deep Learning Protein Binding Computational Biology Proteins
View on PubMed DOI

A Machine Learning Approach to Identify Key Residues Involved in Protein-Protein Interactions Exemplified with SARS-CoV-2 Variants.

International journal of molecular sciences Jun 13, 2024
Human infection with the coronavirus disease 2019 (COVID-19) is mediated by the binding of the spike protein of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) to the human angiotensin-converting enzyme 2 (ACE2). The frequent mutatio...
Humans Binding Sites Machine Learning Spike Glycoprotein, Coronavirus Protein Interaction Domains and Motifs COVID-19 Mutation SARS-CoV-2 Molecular Dynamics Simulation Protein Binding Angiotensin-Converting Enzyme 2
View on PubMed DOI

CSM-Potential2: A comprehensive deep learning platform for the analysis of protein interacting interfaces.

Proteins Oct 23, 2023
Proteins are molecular machinery that participate in virtually all essential biological functions within the cell, which are tightly related to their 3D structure. The importance of understanding protein structure-function relationship is highlighted...
Humans Software Deep Learning Binding Sites Protein Interaction Mapping Protein Interaction Domains and Motifs Databases, Protein Protein Binding Models, Molecular Computational Biology Ligands Proteins Protein Conformation
View on PubMed DOI

Harnessing protein folding neural networks for peptide-protein docking.

Nature communications Jan 10, 2022
Highly accurate protein structure predictions by deep neural networks such as AlphaFold2 and RoseTTAFold have tremendous impact on structural biology and beyond. Here, we show that, although these deep learning approaches have originally been develop...
Proteins Models, Molecular Amino Acid Sequence Binding Sites Software Peptides Molecular Docking Simulation Protein Binding Protein Conformation, beta-Strand Protein Interaction Mapping Protein Folding Protein Interaction Domains and Motifs Protein Conformation, alpha-Helical Neural Networks, Computer
View on PubMed DOI

DeepRank: a deep learning framework for data mining 3D protein-protein interfaces.

Nature communications Dec 3, 2021
Three-dimensional (3D) structures of protein complexes provide fundamental information to decipher biological processes at the molecular scale. The vast amount of experimentally and computationally resolved protein-protein interfaces (PPIs) offers th...
Deep Learning Protein Interaction Maps Data Mining Datasets as Topic Protein Interaction Mapping Protein Interaction Domains and Motifs Crystallography Molecular Docking Simulation
View on PubMed DOI

MCN-CPI: Multiscale Convolutional Network for Compound-Protein Interaction Prediction.

Biomolecules Jul 29, 2021
In the process of drug discovery, identifying the interaction between the protein and the novel compound plays an important role. With the development of technology, deep learning methods have shown excellent performance in various situations. Howeve...
Protein Conformation, alpha-Helical Protein Conformation, beta-Strand Drugs, Investigational Datasets as Topic Binding Sites Protein Interaction Domains and Motifs Humans Molecular Docking Simulation Drug Discovery Deep Learning Protein Binding Proteins Kinetics High-Throughput Screening Assays
View on PubMed DOI

Active Learning and the Potential of Neural Networks Accelerate Molecular Screening for the Design of a New Molecule Effective against SARS-CoV-2.

BioMed research international May 25, 2021
A global pandemic has emerged following the appearance of the new severe acute respiratory virus whose official name is the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), strongly affecting the health sector as well as the world econom...
Small Molecule Libraries Biological Products Molecular Docking Simulation Catalytic Domain Protein Structure, Secondary Gene Expression Drug Design Humans Substrate Specificity Protein Interaction Domains and Motifs Kinetics Antiviral Agents Coronavirus 3C Proteases Thermodynamics Neural Networks, Computer COVID-19 Drug Treatment Protein Binding SARS-CoV-2 Protease Inhibitors
View on PubMed DOI

Analyzing effect of quadruple multiple sequence alignments on deep learning based protein inter-residue distance prediction.

Scientific reports Apr 7, 2021
Protein 3D structure prediction has advanced significantly in recent years due to improving contact prediction accuracy. This improvement has been largely due to deep learning approaches that predict inter-residue contacts and, more recently, distanc...
Neural Networks, Computer Sequence Alignment Protein Structure, Tertiary Deep Learning Sequence Analysis, Protein Proteins Protein Interaction Domains and Motifs Models, Molecular Caspases
View on PubMed DOI

Combination of deep neural network with attention mechanism enhances the explainability of protein contact prediction.

Proteins Feb 16, 2021
Deep learning has emerged as a revolutionary technology for protein residue-residue contact prediction since the 2012 CASP10 competition. Considerable advancements in the predictive power of the deep learning-based contact predictions have been achie...
Sequence Analysis, Protein Benchmarking Protein Binding Humans Protein Conformation Protein Interaction Domains and Motifs Software Computational Biology Binding Sites Research Design Sequence Alignment Proteins Deep Learning Databases, Protein
View on PubMed DOI

Robust principal component analysis-based prediction of protein-protein interaction hot spots.

Proteins Feb 2, 2021
Proteins often exert their function by binding to other cellular partners. The hot spots are key residues for protein-protein binding. Their identification may shed light on the impact of disease associated mutations on protein complexes and help des...
Proteins Databases, Protein Principal Component Analysis Models, Molecular Binding Sites Protein Interaction Mapping Protein Interaction Domains and Motifs Machine Learning ROC Curve Protein Binding Computational Biology Humans
View on PubMed DOI
Popular Topics
Recent Journals