Happy anniversary, PDBe!

Happy anniversary, PDBe!

20 Dec 2016 - 11:26

Nowadays, we can see the position of atoms as if we had vision millions of times sharper than human eyes allow. This is the gift of structural biology – the science of figuring out the three-dimensional structures of molecules (usually proteins), and correlating their shape to their function. Such insights give us clues about how changing a molecule’s shape could change what it does. That’s essentially how medicines work.

Determining the shapes of molecules is painstaking work, so sharing that knowledge openly with scientists around the world is essential for publicly funded research to proceed efficiently. EMBL-EBI is at the heart of open data in the life sciences, and hosts the European arm of the world’s longest-running molecular data resource: the Protein Data Bank (PDB). Launched in 1971, the PDB is now a worldwide collaboration (wwPDB) hosting databases in the US, Japan and Europe that inspire innovation and promote understanding of the fundamental processes of life.

As the Protein Data Bank in Europe (PDBe) looks back on its 20th year in operation - and celebrates its annotation of the PDB's 25,000th structure today - Ewan Birney is marking its success by paying homage to some of its most intriguing tenants.

Which structures made the grade?

The first of Birney’s nine ‘Structures of Christmas’ is lysozyme, a protein found in our tears (and egg whites). It is one of the most researched protein structures, and was the first enzyme structure to be solved via X-ray diffraction.

Read Ewan Birney's blog post on lysozyme

The rest of Birney's Structures of Christmas include:

“Christmas structures” 3D print design and photo credit: Spencer Phillips, EMBL-EBI

Photo: Thanks to the curators in our Protein Data Bank in Europe team who helped us create eight 3D structures as ornaments on the EMBL-EBI Christmas tree! Lysozyme was too fiddly to print, but the rest worked out beautifully. Special thanks to Matthew Conroy and Alice Clark for their help. Pictured from left to right: Eduardo Sanz-Garcia, Abhik Mukhopadhyay, Typhaine Paysan-Lafosse, David Armstrong, Matthew Conroy, John Berrisford, Sanja Abbott, Lora Mak, Andrii Iudin, Alice Clark, Oliver Smart and Carlos Lugo. [“Christmas structures” 3D print design and photo credit: Spencer Phillips, EMBL-EBI]

Read more

Contact the news team

Mary Todd Bergman
Senior Communications Officer
mary@ebi.ac.uk
+44 (0)1223 494 665

Oana Stroe
Communications Officer
stroe@ebi.ac.uk
+44 (0)1223 494 369

Subscribe to the e-mail newsletter
Get a monthly round-up of the hottest news and features from EMBL, straight to your inbox.
Or stay updated with the RSS feed (EMBL-EBI only).