This session is aimed at people who work on proteins or protein-related data, and would like to find structural data to help support their work. Which proteins can be searched All protein-encoding gene models in the. You can get more information about PDBTM in our articles and in the PDBTM.
Initially PPDB was dedicated to plant plastids, but has now expanded to the whole plant proteome hence it was renamed from Plastid PDB to Plant PDB in November 2007. The PDBTM database was created by scanning all PDB entries with the TMDET algorithm.
#PDB DATABASE HOW TO#
You will learn how to access these pages, navigate the various sections, and understand how to do more in-depth analysis of data in the PDB. PPDB is a Plant Proteome DataBase for Arabidopsis thaliana and maize (Zea mays). This includes structural coverage, ligand interaction sites, protein-protein contacts, and functional annotations from a range of external databases. Create service for current pdb using name and new network service name. The first output from PDBe-KB are the aggregated views of proteins, which present all the structural data available for a specific protein. If /DEBUG is not specified, the /PDB option is ignored. Use /PDB: filename to specify the name of the PDB file.
The default file name for the PDB has the base name of the program and the extension. In this session we will introduce PDBe Knowledge Base (PDBe-KB), a new, community-based resource which brings together PDB data and functional annotations in innovative ways. By default, when /DEBUG is specified, the linker creates a program database (PDB) which holds debugging information. Are you a bit overwhelmed by all the structural data in the PDB? Would you like to more easily identify functional sites in protein structures? Then this could be the session for you.
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