ChannelsDB: database of biomacromolecular tunnels and pores
2018
ChannelsDB (http://ncbr.muni.cz/ChannelsDB) is a database
providing information about the positions, geometry and
physicochemical properties of channels (pores and tunnels)
found within biomacromolecular structures deposited in the
Protein Data Bank. Channels were deposited from two sources;
from literature using manual deposition and from a software
tool automatically detecting tunnels leading to the enzymatic
active sites and selected cofactors, and transmembrane pores.
The database stores information about geometrical features
(e.g. length and radius profile along a channel) and
physicochemical properties involving polarity, hydrophobicity,
hydropathy, charge and mutability. The stored data are
interlinked with available UniProt annotation data mapping
known mutation effects to channel-lining residues. All
structures with channels are displayed in a clear interactive
manner, further facilitating data manipulation and
interpretation. As such, ChannelsDB provides an invaluable
resource for research related to deciphering the biological
function of biomacromolecular channels.
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