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Protocols

Waltz specifications

Information


Unique identifier OMICS_03865
Name Waltz
Interface Web user interface
Restrictions to use None
Input data Protein sequences
Input format FASTA
Output data Short text, detailed text with or without graphics
Output format TXT
Computer skills Basic
Stability Stable
Maintained Yes

Publication for Waltz

Waltz citations

 (15)
library_books

Interaction of the Human Contact System with Pathogens—An Update

2018
Front Immunol
PMCID: 5834483
PMID: 29535715
DOI: 10.3389/fimmu.2018.00312

[…] m by activation of host blood coagulation and contact system activation (). For both, the pilin adhesin Gallo2179 and the major pilin (Gallo2178) several amylogenic regions can be predicted by using “Waltz” an amyloid-prediction tool (, ). Nevertheless, whether these proteins are amyloids remains to be investigated.The Gram-positive group A Streptococcus (GAS) bind HK, FXII, and FXI via their surf […]

library_books

Using extensional flow to reveal diverse aggregation landscapes for three IgG1 molecules

2018
Biotechnol Bioeng
PMCID: 5900942
PMID: 29315487
DOI: 10.1002/bit.26543

[…] arket (Jain et al., ; Tiller & Tessier, ; van der Kant et al., ). In silico analyses, such as TANGO (Fernandez‐Escamilla, Rousseau, Schymkowitz, & Serrano, ), Zyggregator (Tartaglia & Vendruscolo, ), Waltz (Oliveberg, ), Aggrescan (Conchillo‐Solé et al., ), and PASTA (Trovato, Seno, & Tosatto, ) can be used to predict the presence of aggregation‐prone regions (APRs) within proteins using protein p […]

call_split

Amyloidogenicity and toxicity of the reverse and scrambled variants of amyloid‐β 1‐42

2017
FEBS Lett
PMCID: 5363225
PMID: 28185264
DOI: 10.1002/1873-3468.12590
call_split See protocol

[…] The primary sequence of each peptide (Table ) was input in FASTA format into the Waltz algorithm http://waltz.switchlab.org and pH was set to 7 . Data were output as a text file (.dat) and then plotted using excel. […]

call_split

Force Sensitivity in Saccharomyces cerevisiae Flocculins

2016
PMCID: 4989244
PMID: 27547825
DOI: 10.1128/mSphere.00128-16
call_split See protocol

[…] was set at 5.5, and no N- or C-terminal protection was used. The temperature was 298.15 K, and the ionic strength was 0.02. A β-aggregation potential of >20% was considered positive ().Predictions of WALTZ-positive protein sequences were done by uploading the Flo11p sequence to the website http://waltz.switchlab.org/. The pH was set at 5.5 for both flocculins Flo1p and Flo11p, and the threshold wa […]

library_books

Staphylococcal Bap Proteins Build Amyloid Scaffold Biofilm Matrices in Response to Environmental Signals

2016
PLoS Pathog
PMCID: 4915627
PMID: 27327765
DOI: 10.1371/journal.ppat.1005711

[…] ross-β structure [–]. To identify the likely amyloidogenic regions in the series of Bap_B peptides previously identified by MS in the biofilm we used computational algorithms: AGGRESCAN [], PASTA [], WALTZ [] and ZipperDB []. The predictions converged to indicate two Bap_B short sequence stretches as potentially amyloidogenic: TVGNIISNAG named as peptide I (aa 487 to 496), and GIFSYS named as pept […]

library_books

Autoimmune Responses to Soluble Aggregates of Amyloidogenic Proteins Involved in Neurodegenerative Diseases: Overlapping Aggregation Prone and Autoimmunogenic regions

2016
Sci Rep
PMCID: 4770294
PMID: 26924748
DOI: 10.1038/srep22258

[…] al aggregation scores for each sequence belonging to experimentally validated human T-cell autoimmune epitope and amyloidogenic protein datasets were calculated using TANGO (http://tango.crg.es/) and WALTZ (http://waltz.switchlab.org/). All the calculations were performed at temperature 298 K, pH 7.4, ionic strength 0.150 molar and concentration of 1 millimolar. Potential aggregation prone regions […]

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