AIMC Topic: Structural Homology, Protein

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Improved pan-specific prediction of MHC class I peptide binding using a novel receptor clustering data partitioning strategy.

HLA Oct 20, 2016
Pan-specific prediction of receptor-ligand interaction is conventionally done using machine-learning methods that integrates information about both receptor and ligand primary sequences. To achieve optimal performance using machine learning, dealing ...
Pan troglodytes Software Animals Mice Gene Expression Binding Sites Protein Binding Humans Protein Interaction Domains and Motifs Machine Learning Histocompatibility Antigens Class I Macaca Epitopes Gorilla gorilla Structural Homology, Protein Alleles Ligands Oligopeptides
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PDP-CON: prediction of domain/linker residues in protein sequences using a consensus approach.

Journal of molecular modeling Mar 11, 2016
The prediction of domain/linker residues in protein sequences is a crucial task in the functional classification of proteins, homology-based protein structure prediction, and high-throughput structural genomics. In this work, a novel consensus-based ...
Decision Trees Databases, Protein Bayes Theorem Computational Biology Caspase 10 Support Vector Machine Caspase 8 Caspase 9 Sequence Analysis, Protein Humans Discriminant Analysis Structural Homology, Protein Neural Networks, Computer Protein Domains
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Computational Ion Channel Research: from the Application of Artificial Intelligence to Molecular Dynamics Simulations.

Cellular physiology and biochemistry : international journal of experimental cellular physiology, biochemistry, and pharmacology Mar 3, 2021
Although ion channels are crucial in many physiological processes and constitute an important class of drug targets, much is still unclear about their function and possible malfunctions that lead to diseases. In recent years, computational methods ha...
Binding Sites Ion Channels Protein Interaction Domains and Motifs Ligands Quantitative Structure-Activity Relationship Protein Conformation, alpha-Helical Protein Conformation, beta-Strand Membrane Transport Modulators Ion Channel Gating Structural Homology, Protein Software Animals Models, Molecular Molecular Dynamics Simulation Protein Binding Humans Artificial Intelligence
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ComplexContact: a web server for inter-protein contact prediction using deep learning.

Nucleic acids research Jul 2, 2018
ComplexContact (http://raptorx2.uchicago.edu/ComplexContact/) is a web server for sequence-based interfacial residue-residue contact prediction of a putative protein complex. Interfacial residue-residue contacts are critical for understanding how pro...
Computational Biology Escherichia coli Proteins Databases, Factual Deep Learning Protein Structure, Secondary Sequence Alignment Sequence Homology, Amino Acid Internet Amino Acid Sequence Humans Software Protein Interaction Domains and Motifs Structural Homology, Protein
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Biocuration in the structure-function linkage database: the anatomy of a superfamily.

Database : the journal of biological databases and curation Jan 1, 2017
UNLABELLED: With ever-increasing amounts of sequence data available in both the primary literature and sequence repositories, there is a bottleneck in annotating molecular function to a sequence. This article describes the biocuration process and met...
Gene Ontology Enzymes Structural Homology, Protein Structure-Activity Relationship Molecular Sequence Annotation Databases, Protein
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VH-VL orientation prediction for antibody humanization candidate selection: A case study.

mAbs Jan 1, 2016
Antibody humanization describes the procedure of grafting a non-human antibody's complementarity-determining regions, i.e., the variable loop regions that mediate specific interactions with the antigen, onto a β-sheet framework that is representative...
Antibodies, Monoclonal, Humanized Humans Protein Structure, Secondary Structural Homology, Protein Complementarity Determining Regions Models, Molecular Machine Learning
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