Database for Membrane Protein Thermodynamics for understanding folding and stability

Tutorial

The available options to specify the search query

✪ How to search the thermodynamic parameters of a particular protein in MPTherm database?

You can retrieve the thermodynamic data of a specific protein by using the gene name, name of the protein, UniProt and PDB database accession number. Further, the user can also get and filter results based on the name of the organism.

✪ Is there any option to get wild-type and mutant protein data separately?

Yes. The user can use the mutation type search option and choose the type of mutations such as wild-type, single, double and multiple.

✪ What do you mean by residue mutation type in the search field?

There are two boxes provided in this field. First and second boxes represent the wild-type and mutant residue of a mutation. This option is useful to filter the specific type of missense mutation.

✪ What do you mean by protein type and topology?

The protein type represents the structural organization of a protein in the membrane and topology gives the information about the location (Cytoplasm, membrane and extracellular region) of a residue in the cell membrane.

✪ How to get the data based on denaturation and different measurement methods?

User can retrieve the stability data of membrane proteins based on what type of denaturation methods (chemical or thermal) performed for a particular protein. Further, the user can also filter the results based on measurements such as CD, DSC, etc.

✪ Is there any way to display all the data based on the specific thermodynamic parameter?

Yes. User can get the data based on thermodynamic parameters such as melting temperature and free energy change for all the wild-type and mutant proteins. In addition, the user can search by giving the ranges of these parameters.

✪ How to get the data based on the literature information?

The user can search the data by using the author name, year and journal name. You can search the data by providing a certain range of years information.

✪ What is the format to upload the new data?

We request to user or author to enter details of your data in the upload page. When you are giving information about thermodynamic parameters it should be following format:
Name of mutation, Parameter name 1 (unit), Parameter name 2 (unit), Parameter name 3 (unit), etc
Example:
Mutation, Tm(℃), ΔH (kcal/mol)
M90V, 49℃, 8 kcal/mol
Wild-type, 47℃, 6 kcal/mol

Display options


Use the following options to specify which columns to display in the search results page. Some columns are selected by default. The number of results to be displayed per page can also be selected by user.