We are replacing our website with the newly designed pages and services. Please bear with us while we move the website as there might be some disruption. We apologise for the inconvenience.
The table below lists all the deprecated search services and the replacement service that should be used in place of the old service.
| Service name | Replacement service | Description |
|---|---|---|
| Slice Viewer | Volume Slicer | View slices of EM tomograms |
| PDBeView | The new search box at the top of the page | Text based and advanced PDB searching tool |
| PDBstatus | The new search box at the top of the page | Search system to query status of PDB entries |
| Gene ontology browser | The new search box at the top of the page | Browse, list and analyse the structural knowledge embodied in the PDB based on gene ontology |
| Enzyme browser | The new search box at the top of the page | Browse, list and analyse the structural knowledge embodied in the PDB based on enzyme classification |
| Structure folds browser | The new search box at the top of the page | Browse, list and analyse the structural knowledge embodied in the PDB based on structure folds in CATH database |
| Protein families browser | The new search box at the top of the page | Browse, list and analyse the structural knowledge embodied in the PDB based on protein family data from Pfam database |
| Taxonomy browser | The new search box at the top of the page | Browse, list and analyse the structural knowledge embodied in the PDB based on taxonomy data from NCBI taxonomy database |
| Compound browser | The new search box at the top of the page | Browse, list and analyse the structural knowledge embodied in the PDB based on chemical component data inthe PDB |
| PDBeLite Retired service | Not supported please use the search box at the top of this page | Search system based on the relational database |
| PQS-Quick Retired service | Not supported please use Quaternary structure service | A simple protein quaternary structure search |
| PDBeMapQuick Retired service | The new search box at the top of the page or the PDBe API | Quick access to cross-reference information to external databases based on PDB id |
| Search OCA Deprecated service | Not supported please use the search box at the top of this page | OCA form-based system for searching PDB |
| PDBeTemplate Retired service | Not supported | Local residue interactions in the PDB |
| PDBeAnalysis Retired service | Not supported | Validation and analysis of PDBe data |
| NMR Representative Retired service | Not supported | Representative model from NMR ensemble |
| Olderado Retired service | Not supported | Clustering information for NMR entries in the PDB |
| LeView Retired service | Not supported | 2D representations of ligands and their environments and binding interactions for PDB entries |
| Analysis Retired service | Not supported | Validation and analysis of PDBe data |
| Connect Retired service | Not supported | Query system to access to covalently connected residue pairs |
| PDBeDatabase Retired service | Not supported | Direct SQL based query access to PDBe database |
| Select Retired service | Not supported | |
| Statistics Retired service | Not supported | |
| Template Retired service | Not supported | Local residue interactions in the PDB |
| Validate Retired service | Not supported | |
| PDBeXplore | PDBe Search, PDBe Entry pages, PDBe Ligand pages | Browsing interface for retrieving and analysing information on subsets of structures in the PDB using various biological and chemical classifications |
| MSDmotif (Also called Motif, PDBeMotif, MSDSite, PDBeSite) | Not supported | Web application for querying the PDB for ligands, binding sites, small 3D structural and sequence motifs and the underlying database |
| EMSearch (Also called emdb-srv) | Moved to the Electron Microscopy Data Bank (EMDB) | Search system for the EM Database |
| Atlas | PDBe Entry Pages | Overview of an individual PDB entry in a user-friendly layout and serve as a starting point to further exploration. |
| PQS | PISA | A resource to make available coordinates for likely quaternary states for structures contained in the PDB that were determined by X-ray crystallography. |
| ECDB and Eurocarb Retired service | Not supported | |
| Vivaldi (also called NMRViewer) Retired service | Not supported | Web-based service for the analysis, visualization, and validation of NMR structures in the Protein Data Bank (PDB) |
| Widgets Retired service | Not supported | PDBe widgets are pieces of front-end functionality (i.e. look-feel-behaviour in browser coded up in js and css), supported by services at the backend (hosted in PDBe servers). |
| CcpNmr Entry Completion Interface Retired service | Not supported | Secure editing of experimental information and associated datasets through the lifetime of an NMR project |
| RECOORD | Not supported | Database of recalculated NMR structure ensembles hosted at PDBE |
| Biobar Retired service | Not supported | Biobar is a Firefox-compatible toolbar that provides access to a wide range of bioinformatics resources directly in the web browser. |
Users should note that popup blockers will interfere with some of the PDBe services. Any of the following actions can resolve this problem: 1) register our site as allowed to create popup windows; 2) allow popup windows from same URL as the main window; 3) temporarily disable the popup blocker.
