WALTZ-DB 2.0
Names
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WALTZ-DB 2.0
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
WALTZ-DB
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
WALTZ-DB_2.0
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
Names
More detailed information about this field from each metasource.
WALTZ-DB 2.0
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
WALTZ-DB
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
WALTZ-DB_2.0
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:16.787905
Other names: WALTZ-DB, WALTZ-DB_2.0
Names
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WALTZ-DB 2.0
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
WALTZ-DB
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
WALTZ-DB_2.0
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:16.787905
WALTZ-DB 2.0 is a database for characterizing short peptides for their amyloid fiber-forming capacities. The majority of the data comes from electron microscopy, FTIR and Thioflavin-T experiments done by the Switch lab. Apart from that class of data we also provide the amyloid annotation for several other short peptides found in current scientific research papers. Structural models of the potential amyloid cores are provided for every peptide entry.
Description
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WALTZ-DB 2.0 is a database for characterizing short peptides for their amyloid fiber-forming capacities. The majority of the data comes from electron microscopy, FTIR and Thioflavin-T experiments done by the Switch lab. Apart from that class of data we also provide the amyloid annotation for several other short peptides found in current scientific research papers. Structural models of the potential amyloid cores are provided for every peptide entry.
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
The Switch Lab introduces WALTZ-DB 2.0, an open-access database containing information on experimentally determined amyloid-forming hexapeptide sequences (http://waltzdb.switchlab.org/). WALTZ-DB 2.0 is currently updated to store 1416 hexapeptide entries, divided into 9 distinct subsets of origin. The majority of the data comes from electron microscopy, FTIR and Thioflavin-T experiments performed by the Switch lab. Apart from that class of data, WALTZ-DB 2.0 provides the amyloid annotation for several manually curated short peptides mined from recent literature. Using a computational methodology developed in the Switch lab, we have generated 3D-models of the putative amyloid fibril cores of WALTZ-DB 2.0 entries. Structural models, coupled with information on the energetic contributions and fibril core stabilities, can be accessed through individual peptide entries. Customised filtering options for subset selections and new modeling graphical features were added to upgrade online accessibility, providing a user-friendly interface for browsing, downloading and updating. WALTZ-DB 2.0 remains the largest open-access repository for amyloid fibril formation determinants and will continue to enhance the development of new approaches focused on accurate prediction of aggregation prone sequences.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
an updated database containing structural information of experimentally determined amyloid-forming peptides | WALTZ-DB 2.0 is a database for characterizing short peptides for their amyloid fiber-forming capacities. The majority of the data comes from electron microscopy, FTIR and Thioflavin-T experiments done by the Switch lab. Apart from that class of data we also provide the amyloid annotation for several other short peptides found in current scientific research papers. Structural models of the potential amyloid cores are provided for every peptide entry.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:16.787905
Webpage:
http://waltzdb.switchlab.orgWebpage
More detailed information about this field from each metasource.
http://waltzdb.switchlab.org
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://waltzdb.switchlab.org/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
Publications:
Publications
More detailed information about this field from each metasource.
WALTZ-DB 2.0: an updated database containing structural information of experimentally determined amyloid-forming peptides
PMID: 31504823
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
Publications
More detailed information about this field from each metasource.
WALTZ-DB 2.0: an updated database containing structural information of experimentally determined amyloid-forming peptides
PMID: 31504823
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
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WALTZ-DB 2.0: an updated database containing structural information of experimentally determined amyloid-forming peptides
PubMed citations: 22.
22 articles citing: WALTZ-DB 2.0: an updated database containing structural information of experimentally determined amyloid-forming peptides
DES-Amyloidoses "Amyloidoses through the looking-glass": A knowledgebase developed for exploring and linking information related to human amyloid-related diseases. PMID:35877764
Functional Bacterial Amyloids: Understanding Fibrillation, Regulating Biofilm Fibril Formation and Organizing Surface Assemblies. PMID:35807329
Mapping the sequence specificity of heterotypic amyloid interactions enables the identification of aggregation modifiers. PMID:35292653
Bioinformatics Methods in Predicting Amyloid Propensity of Peptides and Proteins. PMID:35167067
Bap-Independent Biofilm Formation in Staphylococcus xylosus. PMID:34946212
Heterotypic Amyloid β interactions facilitate amyloid assembly and modify amyloid structure. PMID:34842295
ReRF-Pred: predicting amyloidogenic regions of proteins based on their pseudo amino acid composition and tripeptide composition. PMID:34753427
Exploring amyloid oligomers with peptide model systems. PMID:34229162
Variability of Amyloid Propensity in Imperfect Repeats of CsgA Protein of Salmonella enterica and Escherichia coli. PMID:34066237
Polyphenol-solubility alters amyloid fibril formation of α-synuclein. PMID:34046949
In silico Approaches for the Design and Optimization of Interfering Peptides Against Protein-Protein Interactions. PMID:33996914
Bioinformatics methods for identification of amyloidogenic peptides show robustness to misannotated training data. PMID:33903613
The Budapest Amyloid Predictor and Its Applications. PMID:33810341
The Participation of the Intrinsically Disordered Regions of the bHLH-PAS Transcription Factors in Disease Development. PMID:33799876
Protein aggregation: in silico algorithms and applications. PMID:33747245
A theoretical study of polymorphism in VQIVYK fibrils. PMID:33571490
Rational optimization of a monoclonal antibody improves the aggregation propensity and enhances the CMC properties along the entire pharmaceutical process chain. PMID:32658605
Structure-based machine-guided mapping of amyloid sequence space reveals uncharted sequence clusters with higher solubilities. PMID:32620861
PATH - Prediction of Amyloidogenicity by Threading and Machine Learning. PMID:32382058
Structure and Aggregation Mechanisms in Amyloids. PMID:32155822
Using protein engineering to understand and modulate aggregation. PMID:32087409
The 27th annual Nucleic Acids Research database issue and molecular biology database collection. PMID:31906604
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Tags
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electron microscopy
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
molecular structure
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
peptide identification
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
peptide library
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein analysis
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein structure
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
polypeptide_region
metasource: Fairsharing.org
version: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
structure databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
small molecules
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
Tags
More detailed information about this field from each metasource.
electron microscopy
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:16.787905
molecular structure
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
peptide identification
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
peptide library
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein analysis
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein structure
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
polypeptide_region
metasource: Fairsharing.orgversion: FAIRsharing.org: WALTZ-DB 2.0; WALTZ-DB 2.0; DOI: https://doi.org/10.25504/FAIRsharing.EGn1ut; Last edited: Sept. 20, 2019, 11:51 a.m.; Last accessed: Jan 03 2022 7:06 p.m.
structure databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
small molecules
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:16.787905
electron microscopy molecular structure peptide identification peptide library protein analysis protein structure polypeptide region structure small molecule
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