AIMC Topic: Protein Structure, Secondary

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DSSP 4: FAIR annotation of protein secondary structure.

Protein science : a publication of the Protein Society Aug 1, 2025
Protein secondary structure annotation is essential for understanding protein architecture, serving as a cornerstone for structural classification, alignment, visualization, and machine learning applications. The Define Secondary Structure of Protein...
Algorithms Proteins Software Molecular Sequence Annotation Protein Structure, Secondary Databases, Protein Models, Molecular
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Machine learning enabled protein secondary structure characterization using drop-coating deposition Raman spectroscopy.

Journal of pharmaceutical and biomedical analysis Jul 15, 2025
Protein structure characterization is critical for therapeutic protein drug development and production. Drop-coating deposition Raman (DCDR) spectroscopy offers rapid and cost-effective acquisition of vibrational spectral data characteristic of prote...
Machine Learning Algorithms Least-Squares Analysis Spectrum Analysis, Raman Protein Structure, Secondary Proteins
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Machine-learning-guided identification of protein secondary structures using spectral and structural descriptors.

Biomaterials science May 27, 2025
Interrogation of the secondary structures of proteins is essential for designing and engineering more effective and safer protein-based biomaterials and other classes of theranostic materials. Protein secondary structures are commonly assessed using ...
Circular Dichroism Machine Learning Algorithms Proteins Protein Structure, Secondary
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DeepSS2GO: protein function prediction from secondary structure.

Briefings in bioinformatics Mar 27, 2024
Predicting protein function is crucial for understanding biological life processes, preventing diseases and developing new drug targets. In recent years, methods based on sequence, structure and biological networks for protein function annotation hav...
Databases, Protein Gene Ontology Computational Biology Proteins Protein Structure, Secondary Sequence Analysis, Protein Neural Networks, Computer Software Algorithms
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Multi-indicator comparative evaluation for deep learning-based protein sequence design methods.

Bioinformatics (Oxford, England) Feb 1, 2024
MOTIVATION: Proteins found in nature represent only a fraction of the vast space of possible proteins. Protein design presents an opportunity to explore and expand this protein landscape. Within protein design, protein sequence design plays a crucial...
Protein Structure, Secondary Amino Acids Amino Acid Sequence Proteins Deep Learning
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AlphaFold Protein Structure Database in 2024: providing structure coverage for over 214 million protein sequences.

Nucleic acids research Jan 5, 2024
The AlphaFold Database Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) has significantly impacted structural biology by amassing over 214 million predicted protein structures, expanding from the initial 300k structures released...
Proteins Search Engine Amino Acid Sequence Artificial Intelligence Databases, Protein Proteome Protein Structure, Secondary
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HN-PPISP: a hybrid network based on MLP-Mixer for protein-protein interaction site prediction.

Briefings in bioinformatics Jan 19, 2023
MOTIVATION: Biological experimental approaches to protein-protein interaction (PPI) site prediction are critical for understanding the mechanisms of biochemical processes but are time-consuming and laborious. With the development of Deep Learning (DL...
Software Amino Acids Amino Acid Sequence Neural Networks, Computer Protein Structure, Secondary
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HelixGAN a deep-learning methodology for conditional de novo design of α-helix structures.

Bioinformatics (Oxford, England) Jan 1, 2023
MOTIVATION: Protein and peptide engineering has become an essential field in biomedicine with therapeutics, diagnostics and synthetic biology applications. Helices are both abundant structural feature in proteins and comprise a major portion of bioac...
Protein Structure, Secondary Protein Conformation, alpha-Helical Deep Learning Peptides Proteins
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LambdaPP: Fast and accessible protein-specific phenotype predictions.

Protein science : a publication of the Protein Society Jan 1, 2023
The availability of accurate and fast artificial intelligence (AI) solutions predicting aspects of proteins are revolutionizing experimental and computational molecular biology. The webserver LambdaPP aspires to supersede PredictProtein, the first in...
Sequence Alignment Protein Structure, Secondary Proteins Amino Acid Sequence Artificial Intelligence Software
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GeoPacker: A novel deep learning framework for protein side-chain modeling.

Protein science : a publication of the Protein Society Dec 1, 2022
Atomic interactions play essential roles in protein folding, structure stabilization, and function performance. Recent advances in deep learning-based methods have achieved impressive success not only in protein structure prediction, but also in prot...
Amino Acid Sequence Protein Conformation Protein Structure, Secondary Deep Learning Algorithms Proteins
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