Assists users for displaying the conformational angles in varied regions. CADB is an online repository that permits researchers to observe the details of amino-acids that lie in all three allowed and disallowed regions of the Ramachandran plot. Precisely, the conformation angles of any amino-acid residue from several protein structures in a particular secondary structural element can be displayed with the 3.0 version this database.
Provides access to information about mechanical stretching of biomolecules. BSDB provides information about expected values of Fmax for, about 17 134 proteins. The values and other characteristics of the unfolding process, including the nature of identified mechanical clamps, are available. Two calculated force, F, versus displacement, d, curves are also displayed. The database relates to four external databases: PDB, CATH, SCOP and Gene Ontology database.
Provides an overview of all missing regions in the Protein Data Bank (PDB) in sequence context. SEQATOMs is derived from PDB and consists of a number of sequence databases and several services, including BLAST and keyword searches, to access the sequence information. It provides four protein sequence databases: (1) PDB SEQATOMS, (2) CATH, (3) PDB SEQRES and (4) DisProt. The BLAST web server allows users to see which regions of the provided query protein correspond with regions without determined structure in PDB.
A comprehensive platform including a database system and an analysis portal, aimed to be a general database for handling nucleic acids simulations. BIGNASim allows direct access to individual trajectory data and pre-computed analyses, as well as global analyses performed on the whole database. The database is based on the combination of two NoSQL engines, Cassandra for storing trajectories and MongoDB to store analysis results and simulation metadata. The analyses available include backbone geometries, helical analysis, NMR observables and a variety of mechanical analyses. Individual trajectories and combined meta-trajectories can be downloaded from the portal.
Provides access to data from studies on direct coupling analysis (DCA) ability to differentiate between properly folded and misfolded structures. DCA vs. Misfolds is dedicated to studies on DCA, a method that can assist researchers in studying protein structure.
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