Quite Interesting PDB Structures


Perhaps you have come across macromolecular structures in paper figures and on journal covers but would like to delve deeper into the structures that interest you? We hope that PDBeQuips will be a starting point for showing you how to start exploring the structures in the PDB archive and answer questions about structural data. They should also show you how PDBe equips you to search and analyse macromolecular structures.

PDBeQuips are short articles and tutorials on structures picked from the PDB archive. More often than not, as the name suggests, these pages will focus on 'quite interesting' PDB structures rather than daunting behemoths. The tutorials assume that you have a background in biology, chemistry, or medicine and have an interest in proteins, nucleic acids, and drug interactions.

The PDBeQuips pages employ an interactive format - we choose views of each PDB structure to highlight points made in the text. Follow our tour of each structure by clicking on links to these views (shown as View) and they will appear, in real time, in the graphics window alongside. Moreover, the viewer is also yours to command if you want to spin the structure around or go on a detour to a different part of the structure. You can stop any animations using the Stop button above the window. Move your mouse pointer into the graphics window, then left-click to rotate the view using the mouse, use the shift button and vertical movement (again left-clicked) to zoom in and out. Then just rejoin the PDBeQuips tour by selecting the next 'view' link.

Five kinds of (colour-coded) buttons and links are used in PDBeQuips articles. Clicking a View button changes, or resets, the current view shown in the 3D applet graphics window as described above. A Reference link shows a tooltip describing the reference and, when clicked, takes you to a new page containing more details on the reference, e.g. the journal page. A Glossary link shows a tooltip explaining a technical term, and when clicked, takes you to the glossary page. A PDBe link takes you to a relevant PDBe page in a new window. A Tutorial link opens a new window with a mini-tutorial on a PDBe service exploring the subject of the PDBeQuips article in more detail.

PDBeQuips articles will also point you to resources and services at PDBe that can be useful in your own explorations of the wonderful world of structures. When a particular PDBe service is especially useful for understanding a PDBeQuips structure we will provide a walk-through mini-tutorial page to show how it works. This will get you started in using these services for your own structural searches and analyses.

If you would like to use the PDBeQuips format to tell a story about any interesting structures of your own then please email us. If you have any feedback, bug reports or feature requests, you can use the feedback button at the top of any PDBe page.