Navigation Links
Protein Data Bank: 100,000 structures
Date:5/13/2014

Spanning the globe from the US, UK, and Japan, the Worldwide Protein Data Bank (wwPDB) organization announces that the Protein Data Bank archive now contains more than 100,000 entries.

Established in 1971, this central, public archive of experimentally-determined protein and nucleic acid structures has reached a critical milestone thanks to the efforts of structural biologists throughout the world.

Four wwPDB data centers support online access to three-dimensional structures of biological macromolecules that help researchers understand many facets of biomedicine, agriculture, and ecology, from protein synthesis to health and disease to biological energy.

Function follows form

In the 1950s, scientists had their first direct look at the structures of proteins and DNA at the atomic level. Determination of these early three-dimensional structures by X-ray crystallography ushered in a new era in biologyone driven by the intimate link between form and biological function. As the value of archiving and sharing these data were quickly recognized by the scientific community, the Protein Data Bank (PDB) was established as the first open access digital resource in all of biology by an international collaboration in 1971 with data centers located in the US and the UK.

Among the first structures deposited in the PDB were those of myoglobin and hemoglobin, two oxygen-binding molecules whose structures were elucidated by Chemistry Nobel Laureates John Kendrew and Max Perutz. With this week's regular update, the PDB welcomes 219 new structures into the archive. These structures join others vital to drug discovery, bioinformatics, and education, for a total of 100,147 entries.

The PDB is growing rapidly, doubling in size since 2008, and releasing around 200 new structures to the scientific community every week. The resource is accessed hundreds of millions of times annually by researchers, students, and educators intent on exploring how different proteins are related to one another, to clarify fundamental biological mechanisms and discover new medicines.

"The PDB is a critical resource for the international community of working scientists which includes everyone from geneticists to pharmaceutical companies interested in drug targets," said Nobel Laureate Venki Ramakrishnan of the MRC Laboratory of Molecular Biology in Cambridge, UK.

A growing community

Since its inception, the PDB has been a community-driven enterprise, evolving into a mission critical international resource for biological research. Since 2003 the Worldwide PDB (wwPDB) organization, a collaboration involving four PDB data centers in the US, UK, and Japan, has ensured that these valuable data are securely stored, expertly managed, and made freely available for the benefit of scientists and educators around the globe. wwPDB data centers work closely with community experts to define deposition and annotation policies, resolve data representation issues, and implement community validation standards. In addition, the wwPDB works to raise the profile of structural biology with increasingly broad audiences.

Each structure submitted to the archive is carefully curated by wwPDB staff before release. New depositions are checked and enhanced with value-added annotations and linked with other important biological data to ensure that PDB structures are discoverable and interpretable by users with a wide range of backgrounds and interests.

Future challenges

The scientific community eagerly awaits the next 100,000 structures and the invaluable knowledge these new data will bring. However, the increasing number, size and complexity of biological data being deposited in the PDB and the emergence of hybrid structure determination methods, which use a variety of biophysical, biochemical, and modelling techniques to determine the shapes of biologically relevant molecules, constitute major challenges for the management and representation of structural data. wwPDB will continue to work with the community to meet these challenges and ensure that the archive maintains the highest possible standards of quality, integrity, and consistency.


'/>"/>

Contact: Christine Zardecki
info@rcsb.org
848-445-0103
Rutgers University
Source:Eurekalert  

Related biology news :

1. IU biologists offer clearer picture of how protein machine systems tweak gene expression
2. Making memories: How 1 protein does it
3. Embryonic development protein active in cancer growth
4. More effective method of imaging proteins
5. The loss of a protein makes jump the tumor to the lymph node
6. Gold nanoantennas detect proteins
7. The Japanese traditional therapy, honokiol, blocks key protein in inflammatory brain damage
8. New hope for treating Alzheimers Disease: A role for the FKBP52 protein
9. Protein jailbreak helps breast cancer cells live
10. Plant research reveals new role for gene silencing protein
11. Newly found protein helps cells build tissues
Post Your Comments:
*Name:
*Comment:
*Email:
Related Image:
Protein Data Bank: 100,000 structures
(Date:2/2/2016)... YORK , Feb. 2, 2016 ... of the bioinformatic market by reviewing the recent ... enabled tools that drive the field forward. Includes ... to: Identify the challenges and opportunities that ... providers and software solution developers, as well as ...
(Date:2/2/2016)... Va. , Feb. 2, 2016   ... award from the U.S. Army Research Office and ... the range and sensitivity of the company,s ... Past Accounting Mission and, more generally, defense-related DNA ... DNA phenotyping capabilities (predicting appearance and ancestry from ...
(Date:2/1/2016)... YORK , Feb. 1, 2016  Today, the ... Association (AHA) announced plans to develop a first of ... computing power of IBM Watson. In the first application ... AHA, IBM (NYSE: IBM ), and Welltok will ... and health assessments with cognitive analytics, delivered on Welltok,s ...
Breaking Biology News(10 mins):
(Date:2/8/2016)...  NanoViricides, Inc. (NYSE MKT: NNVC) (the "Company"), a nanomedicine company ... MD, MPH, will present information about the company,s programs at the ... New York City . --> ... at 5:30PM EST. Registered attendees can request a one on one ... . --> New York City . ...
(Date:2/6/2016)... ... February 06, 2016 , ... Contact:, Abby ... for Excellence in Education Sponsors Teacher Training Program , Bite of Science Dinner ... The Center for Excellence in Education (CEE) will sponsor a Bite of Science ...
(Date:2/5/2016)... -- Australian-US drug discovery and development company, Novogen Limited (ASX:NRT; ... new Chairman, Mr John O,Connor , and new Deputy ... James Garner , has also been formally appointed to ... Mr Iain Ross , will resume his role on ... Garner , has also been formally appointed to the Board ...
(Date:2/4/2016)... Falls Church, VA (PRWEB) , ... ... ... a first-year cybersecurity conference presented by Bloomsburg University’s Digital Forensics Club, takes ... Bloomsburg, PA. The two-day event features 20+ speakers and activities such as ...
Breaking Biology Technology: