Gathers information about human neutral and disease variants of membrane proteins. MutHTP is a database for understanding the influence of mutations in membrane proteins and developing prediction methods. It provides information on each mutation and its chromosomal location, origin, gene name, UniProt ID, PDB code, location of the mutant with respect to the membrane protein topology (transmembrane domains vs exposed loops), neighbouring residues of the mutant, diseases associated with the mutation, disease classes and the source databases.
Allows users to explore the protein-membrane systems of the Orientations of Proteins in Membranes (OPM) built and equilibrated using High-Throughput Molecular Dynamics (HTMD). OPM-DB simulates the dataset in both CHARMM and AMBER force fields. It permits users to view trajectories, Root-Mean-Square-Deviation (RMSD) plots as well as download the final equilibrated structures for further simulation. The repository is part of the PlayMolecule platform.
Depicts structural relationships between membrane protein structures. EncoMPASS offers a library which gathers data from the orientations of proteins in membranes (OPM) database, the protein data bank (PDB), and the protein data bank of transmembranes protein PDBTM databases. It furnishes data about quaternary and internal symmetries as well as about the predicted orientation of each protein in the lipid bilayer.
Provides access to experimentally-characterized transmembrane (TM) topologies. TMPDB collects TM proteins with topologies based on definite experimental evidence such as X-ray crystallography, NMR, gene fusion technique, or substituted cysteine accessibility method. The database contains about 300 TM protein sequences, including α-helical sequences, β-stranded sequences and α-helical sequences with short pore-forming α-helices buried in the membrane. It can be useful to improve the existing TM topology prediction methods and to develop new ones.
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