Protein Data Bank - an overview | ScienceDirect Topics
The Protein Data Bank (PDB) is an open-access database that saves and distributes (3D) biomolecular structure information to assist in the exploration and design of therapeutic and …
RCSB Protein Data Bank: Architectural Advances Towards …
May 28, 2021 · These ETL operations include updates to reference sequence database correspondences plus reference database correspondences for small molecules in PDB …
RCSB Protein Data Bank: Efficient Searching and ... - ScienceDirect
Jul 15, 2023 · The Research Collaboratory for Structural Bioinformatics (RCSB) Protein Data Bank (PDB) RCSB.org research-focused web portal 1, 2, 3 provides open access to a …
AlphaFold Protein Structure Database and 3D-Beacons: New Data …
Aug 1, 2025 · The AlphaFold Protein Database Updates Structural similarity analysis with Foldseek The AlphaFold Protein Structure Database provides an unprecedented breadth of …
Databases of ligand-binding pockets and protein-ligand interactions
Dec 1, 2024 · Het-PDB Navi [107] is a database of small molecule interactions present in the PDB. In addition to providing information on ligands and interacting residues for each included …
Protein Data Bank - an overview | ScienceDirect Topics
Sep 8, 2015 · The Protein Data Bank The oldest and largest database of protein structure is the Protein Data Bank (PDB) which archives, curates and distributes experimentally determined …
Protein Data Bank Japan: Computational Resources for Analysis of ...
Aug 1, 2025 · The three-dimensional structural data of biological macromolecules are collaboratively maintained by the worldwide Protein Data Bank (wwPDB) partnership. Protein …
AHoJ-DB: A PDB-wide Assignment of apo & holo ... - ScienceDirect
Sep 1, 2024 · Here, we describe a database built by matching the binding sites of biologically relevant protein–ligand interactions from the PDB with their apo and holo counterparts, …
OPRLM: A Web Tool and a Database for Positioning and …
Aug 1, 2025 · For all selected hetero chains from RCSB PDB or OPRLM entries, the server systematically retrieves associated SDF files from the RCSB PDB database for each ligand …
PDID: Database of Experimental and Putative Drug Targets in …
The template proteins come from a database of templates, typically defined as a set of nonredundant high-quality structures of drug-protein complexes curated from the PDB …