MP:PD--a data base of internal packing densities, internal packing defects and internal waters of helical membrane proteins.

ABSTRACT: The membrane protein packing database (MP:PD) (http://proteinformatics.charite.de/mppd) is a database of helical membrane proteins featuring internal atomic packing densities, cavities and waters. Membrane proteins are not tightly packed but contain a considerable number of internal cavities that differ in volume, polarity and solvent accessibility as well as in their filling with internal water. Internal cavities are supposed to be regions of high physical compressibility. By serving as mobile hydrogen bonding donors or acceptors, internal waters likely facilitate transition between different functional states. Despite these distinct functional roles, internal cavities of helical membrane proteins are not well characterized, mainly because most internal waters are not resolved by crystal

SUBMITTER: Rose A 

PROVIDER: S-EPMC3965053 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature