Cargando…

A3DyDB: exploring structural aggregation propensities in the yeast proteome

BACKGROUND: The budding yeast Saccharomyces cerevisiae (S. cerevisiae) is a well-established model system for studying protein aggregation due to the conservation of essential cellular structures and pathways found across eukaryotes. However, limited structural knowledge of its proteome has prevente...

Descripción completa

Detalles Bibliográficos
Autores principales:	Garcia-Pardo, Javier, Badaczewska-Dawid, Aleksandra E., Pintado-Grima, Carlos, Iglesias, Valentín, Kuriata, Aleksander, Kmiecik, Sebastian, Ventura, Salvador
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2023
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10504709/ https://www.ncbi.nlm.nih.gov/pubmed/37716955 http://dx.doi.org/10.1186/s12934-023-02182-3

Ejemplares similares

A3D database: structure-based predictions of protein aggregation for the human proteome
por: Badaczewska-Dawid, Aleksandra E, et al.
Publicado: (2022)

aSynPEP-DB: a database of biogenic peptides for inhibiting α-synuclein aggregation
por: Pintado-Grima, Carlos, et al.
Publicado: (2023)

CABS-dock standalone: a toolbox for flexible protein–peptide docking
por: Kurcinski, Mateusz, et al.
Publicado: (2019)

Aggrescan3D (A3D) 2.0: prediction and engineering of protein solubility
por: Kuriata, Aleksander, et al.
Publicado: (2019)

Computational reconstruction of atomistic protein structures from coarse-grained models
por: Badaczewska-Dawid, Aleksandra E., et al.
Publicado: (2019)

Docking of peptides to GPCRs using a combination of CABS-dock with FlexPepDock refinement
por: Badaczewska-Dawid, Aleksandra E, et al.
Publicado: (2020)

AMYCO: evaluation of mutational impact on prion-like proteins aggregation propensity
por: Iglesias, Valentin, et al.
Publicado: (2019)

Modeling of Protein Structural Flexibility and Large-Scale Dynamics: Coarse-Grained Simulations and Elastic Network Models
por: Kmiecik, Sebastian, et al.
Publicado: (2018)

MAPIYA contact map server for identification and visualization of molecular interactions in proteins and biological complexes
por: Badaczewska-Dawid, Aleksandra E, et al.
Publicado: (2022)

SGnn: A Web Server for the Prediction of Prion-Like Domains Recruitment to Stress Granules Upon Heat Stress
por: Iglesias, Valentín, et al.
Publicado: (2021)

DispHScan: A Multi-Sequence Web Tool for Predicting Protein Disorder as a Function of pH
por: Pintado-Grima, Carlos, et al.
Publicado: (2021)

CARs-DB: A Database of Cryptic Amyloidogenic Regions in Intrinsically Disordered Proteins
por: Pintado-Grima, Carlos, et al.
Publicado: (2022)

Modeling of Disordered Protein Structures Using Monte Carlo Simulations and Knowledge-Based Statistical Force Fields
por: Ciemny, Maciej Pawel, et al.
Publicado: (2019)

Exploring cryptic amyloidogenic regions in prion-like proteins from plants
por: Pintado-Grima, Carlos, et al.
Publicado: (2023)

In-Silico Analysis of pH-Dependent Liquid-Liquid Phase Separation in Intrinsically Disordered Proteins
por: Pintado-Grima, Carlos, et al.
Publicado: (2022)

Aggregation propensity of neuronal receptors: potential implications in neurodegenerative disorders
por: Navarro, Susanna, et al.
Publicado: (2015)

CABS-flex 2.0: a web server for fast simulations of flexibility of protein structures
por: Kuriata, Aleksander, et al.
Publicado: (2018)

CABS-flex standalone: a simulation environment for fast modeling of protein flexibility
por: Kurcinski, Mateusz, et al.
Publicado: (2019)

Data on correlation between Aβ42 structural aggregation propensity and toxicity in bacteria
por: Carija, Anita, et al.
Publicado: (2016)

Computational Assessment of Bacterial Protein Structures Indicates a Selection Against Aggregation
por: Carija, Anita, et al.
Publicado: (2019)

AGGRESCAN3D (A3D): server for prediction of aggregation properties of protein structures
por: Zambrano, Rafael, et al.
Publicado: (2015)

Computational prediction of protein aggregation: Advances in proteomics, conformation-specific algorithms and biotechnological applications
por: Santos, Jaime, et al.
Publicado: (2020)

DispHred: A Server to Predict pH-Dependent Order–Disorder Transitions in Intrinsically Disordered Proteins
por: Santos, Jaime, et al.
Publicado: (2020)

BIAPSS: A Comprehensive Physicochemical Analyzer of Proteins Undergoing Liquid–Liquid Phase Separation
por: Badaczewska-Dawid, Aleksandra E., et al.
Publicado: (2022)

Dyed Quinine
por: Warden, C. J. H.
Publicado: (1877)

Dyed Quinine
por: Browne, Jas.
Publicado: (1877)

pH-Dependent Aggregation in Intrinsically Disordered Proteins Is Determined by Charge and Lipophilicity
por: Santos, Jaime, et al.
Publicado: (2020)

Assembly of Dy(60) and Dy(30) cage-shaped nanoclusters
por: Luo, Zhi-Rong, et al.
Publicado: (2020)

Single Molecule Magnetism with Strong Magnetic Anisotropy and Enhanced Dy∙∙∙Dy Coupling in Three Isomers of Dy‐Oxide Clusterfullerene Dy(2)O@C(82)
por: Yang, Wei, et al.
Publicado: (2019)

Comparison of the Sequence-Dependent Fluorescence of the Cyanine Dyes Cy3, Cy5, DyLight DY547 and DyLight DY647 on Single-Stranded DNA
por: Kretschy, Nicole, et al.
Publicado: (2014)

Aggregation Propensity of the Human Proteome
por: Monsellier, Elodie, et al.
Publicado: (2008)

The dynamic landscape of peptide activity prediction
por: Bárcenas, Oriol, et al.
Publicado: (2022)

Single‐Molecule Magnets DyM(2)N@C(80) and Dy(2)MN@C(80) (M=Sc, Lu): The Impact of Diamagnetic Metals on Dy(3+) Magnetic Anisotropy, Dy⋅⋅⋅Dy Coupling, and Mixing of Molecular and Lattice Vibrations
por: Spree, Lukas, et al.
Publicado: (2020)

Development of Small Molecules Targeting α-Synuclein Aggregation: A Promising Strategy to Treat Parkinson’s Disease
por: Peña-Díaz, Samuel, et al.
Publicado: (2023)

BioShell 3.0: Library for Processing Structural Biology Data
por: Macnar, Joanna M., et al.
Publicado: (2020)

RegulatorDB: a resource for the analysis of yeast transcriptional regulation
por: Choi, John A., et al.
Publicado: (2017)

Editorial: Protein Solubility and Aggregation in Bacteria
por: Ventura, Salvador
Publicado: (2016)

Single Molecule Magnets: Single Molecule Magnetism with Strong Magnetic Anisotropy and Enhanced Dy∙∙∙Dy Coupling in Three Isomers of Dy‐Oxide Clusterfullerene Dy(2)O@C(82) (Adv. Sci. 20/2019)
por: Yang, Wei, et al.
Publicado: (2019)

High precision observables in DY
por: Freitas, Ayres
Publicado: (2022)

TargetDB: A target information aggregation tool and tractability predictor
por: De Cesco, Stephane, et al.
Publicado: (2020)

Cannot write session to /tmp/vufind_sessions/sess_j2af30rq6mrra6sk132avma6fj