AIMC Topic: Cysteine

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modeling of the cryptic E2∼ubiquitin-binding site of E6-associated protein (E6AP)/UBE3A reveals the mechanism of polyubiquitin chain assembly.

The Journal of biological chemistry Sep 18, 2017
To understand the mechanism for assembly of Lys-linked polyubiquitin degradation signals, we previously demonstrated that the E6AP/UBE3A ligase harbors two functionally distinct E2∼ubiquitin-binding sites: a high-affinity Site 1 required for E6AP Cys...
Recombinant Fusion Proteins Binding Sites Amino Acid Substitution Ubiquitination Protein Multimerization Mutagenesis, Site-Directed Ubiquitin Biocatalysis Protein Conformation Cysteine Ubiquitin-Protein Ligases Iodine Radioisotopes Expert Systems Models, Molecular Animals Point Mutation Molecular Docking Simulation Isoenzymes Humans Cattle Computational Biology Ubiquitin-Conjugating Enzymes
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S-SulfPred: A sensitive predictor to capture S-sulfenylation sites based on a resampling one-sided selection undersampling-synthetic minority oversampling technique.

Journal of theoretical biology Apr 12, 2017
Protein S-sulfenylation is a reversible post-translational modification involving covalent attachment of hydroxide to the thiol group of cysteine residues, which is involved in various biological processes including cell signaling, response to stress...
Software Support Vector Machine Protein Processing, Post-Translational Databases, Protein Sequence Analysis, Protein Cysteine
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MDD-SOH: exploiting maximal dependence decomposition to identify S-sulfenylation sites with substrate motifs.

Bioinformatics (Oxford, England) Sep 26, 2015
UNLABELLED: S-sulfenylation (S-sulphenylation, or sulfenic acid), the covalent attachment of S-hydroxyl (-SOH) to cysteine thiol, plays a significant role in redox regulation of protein functions. Although sulfenic acid is transient and labile, most ...
Sequence Analysis, Protein Humans Amino Acids Software Amino Acid Motifs Sulfur Acids Protein Processing, Post-Translational Cysteine Support Vector Machine Proteins
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TopCysteineDB: A Cysteinome-wide Database Integrating Structural and Chemoproteomics Data for Cysteine Ligandability Prediction.

Journal of molecular biology Aug 1, 2025
Development of targeted covalent inhibitors and covalent ligand-first approaches have emerged as a powerful strategy in drug design, with cysteines being attractive targets due to their nucleophilicity and relative scarcity. While structural biology ...
Proteome Databases, Protein Ligands Machine Learning Humans Cysteine Proteomics
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CIAA: Integrated Proteomics and Structural Modeling for Understanding Cysteine Reactivity with Iodoacetamide Alkyne.

ACS chemical biology Jul 18, 2025
Cysteine residues play key roles in protein structure and function and can serve as targets for chemical probes and even drugs. Chemoproteomic studies have revealed that heightened cysteine reactivity toward electrophilic probes, such as iodoacetamid...
Alkynes Iodoacetamide Proteomics Models, Molecular Cysteine
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Prediction of S-nitrosylation sites by integrating support vector machines and random forest.

Molecular omics Dec 2, 2019
Cysteine S-nitrosylation is a type of reversible post-translational modification of proteins, which controls diverse biological processes. It is associated with redox-based cellular signaling to protect against oxidative stress. The identification of...
Software Cysteine Algorithms Protein Processing, Post-Translational Computational Biology Support Vector Machine
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