Editing LiteMol:Hierarchy (section)

==Molecule (M)==

A '''Molecule''' entity represents a set of structural data for a '''Molecule''' (which corresponds to one PDB entry or one mmCIF file).

Applicable actions:
* '''Model''' – Creates a model of the molecule ([[LiteMol:Hierarchy#Molecule Model (MM) |Molecule Model]] entity). Some PDB entries (mostly NMR structures) contain multiple models, in such case, the sequential number ('''Index''') of the desired model to be displayed can be specified.
* '''Density Streaming''' - Creates a [[LiteMol:Hierarchy#Density Streaming (BDS) |Density Streaming]] for this molecule. Clicking on an atom or residue in the structure will instantly download and display the density data for the surrounding region. This solution is, in general, much faster than downloading the whole density map (often more than 1 GB). More details are available [http://webchem.ncbr.muni.cz/DensityServer here].
* '''PDBe Validation Report''' – Downloads wwPDB validation data for this molecule from PDBe and creates a [[LiteMol:Hierarchy#Validation Report (VR) |Validation Report]] entity.
* '''Ligand Validation Report''' - Downloads validation data for the ligands in this molecule from [http://webchem.ncbr.muni.cz/Platform/ValidatorDb ValidatorDB] and creates a [[LiteMol:Hierarchy#Validation Report (VR) |Validation Report]] entity.
* '''PDBe Sequence Annotations''' – Downloads sequence annotation data for this molecule from PDBe (collected from sources such as UniProt, InterProt, Pfam etc.) and creates a [[LiteMol:Hierarchy#Sequence Annotations (SA) | Sequence Annotations]] entity.