Welcome to ProteinPred
ProteinPred is a
ProteinPred provides three types of user inputs:
Calculated parameters includes :
- Amino Acid Compositions & Chemical Scores
- Biophysical Chemical Parameters : molecular weight, isoelectric point, hydrophobicity, fraction of charged residues, net of charge per residue,
partial specific volume, protein volume, extinction coefficients, nitrogen-to-protein conversion factor, partial specific volume, refractive index increment (dn/dc), protein volume
- Theoretical UV-Visible Spectra,
- Wavelength Dependence of dn/dc,
- Protein Charge & capacitance as a function of pH,
- Theoretical Sorption Isotherm and related parameters,
- Scattering-Related Parameters: atomic composition, scattering length density (SLD), D2O/H2O matching point & electron density.
Explore your results on the web interface, receive them via email, or download as an Excel file.
Visit the Documentation tab for detailed explanations of calculations, corresponding references for citation, and contact information for any questions or comments.
Welcome to Help Section
- Protein name: no specific requirements,
- Amino acid sequence: unlimited number of letters comprised in the natural 20 amino acids code (fasta format accepted),
- Number of polypeptide chains: numerical value, not exceeding the total number of amino acid
- Number of disulfide bonds: numerical value, not exceeding twice the cystein content.
- Contain at least 4 columns with the column names provided in the template,
- Contain at least 1 row,
- Protein name: unique value,
- Amino acid sequence: unlimited number of letters comprised in the natural 20 amino acids code (fasta format not accepted),
- Number of polypeptide chains: numerical values, not exceeding the total number of amino acid
- Number of disulfide bonds: numerical values, not exceeding twice the cystein content.
- Contain at least 24 columns with the column names provided in the template,
- Contain at least 1 row,
- Protein name: unique value,
- Number of polypeptide chains: numerical values, not exceeding the total number of amino acid
- Number of disulfide bonds: numerical values, not exceeding twice the cystein content.
- Amino acid composition: expressed in g/kg of powder for 18 amino acids ,
- Molecular weight: expressed in g/mol,
The module 'Amino acid Composition' requires information beyond amino acid composition. Specifically, experimentally, asparagines and glutamines are analyzed in their acidic forms. Therefore, an estimation of the ratios of asparagine (N) to aspartic acid (D) and glutamine (Q) to glutamic acid (E) is needed. These ratios are expressed as follows:
- Ratio_N_N+D = weight of N / (weight of N + weight of D),
- Ratio_Q_Q+E = weight of Q / (weight of Q + weight of E),
You can get the indivual data either in each tabset using the "Copy", "Download", and/or "Save plot" buttons
All the data may be downloaded or sent by email on the top right panel.
About ProteinPred
ProteinPred is a computing tool designed to meet the needs of researchers, engineers, and students in Food Science & Technology . It may also be of interest to broader communities in biophysics, biotechnology, or biomedical fields.
The calculation, iconography, and design behind ProteinPred were built by Adeline Boire, research scientist at INRAE, BIA Nantes. The ShinyApp and the informatic infrastructure behind to host the website were developed by Michard Rakotoson, computer engineer at INRAE, Plastic (TRANSFORM platform). For bug reports and feature requests, please contact Adeline Boire at adeline.boire@inrae.fr .
The following people have contributed to the development of ProteinPred: Maude Ducrocq, Aurélie Nicolas, Stéphane Pezennec, Antoine Bouchoux, Denis Renard and Hamza Mameri.
The application was developped in the framework of the project FoodProteinsDB, founded by
INRAE TRANSFORM department department during the period of 2022-2023.
Paper in preparation.
