Posts Tagged ‘pdb’

Does my family of interest have a determined 3D protein structure?

May 9, 2012

Two related questions that we are often asked via the Pfam helpdesk is ‘Which families have a known three-dimensional structure?’ and ‘Why is a particular a PDB structure not found in Pfam’.  You may think that there are obvious answers to these questions – but as with many things in life the answer is not necessarily as straight forward as you would have thought. In this joint posting between Andreas Prlic (senior scientist at RCSB Protein Data Bank) and myself (Rob Finn, Pfam Production Lead), we will elaborate on the way the PDB and Pfam cross referencing occurs, why discrepancies occurred in the past and describe the pipeline that the RCSB PDB has implemented using the HMMER web services API, which should provide the most current answer to these  questions. Read the rest of this entry »

Updates to Rfam in 2008

February 11, 2009

2008 was a big year for Rfam. I’ll outline a few of the major achievements below. Many of these developments are also discussed in the latest Rfam papers [1,2].
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