Michelanglo — Name to PDB
Get a model of a protein by querying a name
This convenient form simply searches for PDBs that match your protein, while for a more comprehensive search use the PDB database .
If you already know the PDB code of your protein see PDB conversion page.
For more information about choosing a model see documentation.
Data loaded for
Two pieces of information are presented here to help you choose: the first is the length of the protein and the second is the partners if any in the structure.
Proteins can be crystallised with ligands or binding partners and it is often beneficial to choose a specific one.
Step 2 Configure initial view
Choose how the view of the protein should look like when page first loads (initial view) by either using the view-building interface or by editing the tag directly. See documentation for more information.
Residue numbering mismatchThe residue numbers in the PDB file and those in Uniprot differ for some chains
Press here to make the residues in the structure to match Uniprot (irreversible):
Predicted modelThis structure is from Swiss-Model. It is a computational model generated by threaded against a crystallised structure (Swissmodel docs ). It may be incorrect. E.g. missing ligands or broken cysteine bonds.
<span class="prolink" data-toggle="viewport">Change a setting!</span>
The mutations will be in the main structure after the page is created. If the mutated residue is shown in the initial view, it is suggested to use 'clash' focus mode. To show first the wild type structure on page loading but allow the visitor to toggle to a mutation, create a page with no mutations and then add them in the edit menu.
The asymmetric state of crystal structures do not always reflect the oligomerisation of the protein or there may be unneeded chains.
Remove waters and ligands
Crystallographic waters are that kept in an ordered position by the protein. Often chemicals that aid in crystallisation are similarly found. Natural ligands will not be removed (cf. blacklist).
Step 3 Create
Create page. Note that chosen initial view cannot be changed once created.