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BDB: databank of PDB files with consistent B-factors
1Centre for Molecular and Biomolecular Informatics (CMBI), Radboud University Medical Center, Geert Grooteplein Zuid 26-28, 6525 GA Nijmegen, The Netherlands.
Protein Engineering, Design & Selection : PEDS
|October 23, 2014
Summary
This study introduces a new database of protein structures with standardized B-factors for improved protein engineering. The Databank of PDB files with consistent B-factors (BDB) offers a homogeneous representation of atomic mobility.
Area of Science:
- Structural biology
- Computational biology
- Protein engineering
Background:
- Protein Data Bank (PDB) files contain atomic coordinates, occupancy, and B-factors.
- B-factors represent atomic mobility but can vary in representation.
- Inconsistent B-factor representations hinder protein engineering applications.
Purpose of the Study:
- To create a homogeneous representation of B-factors for protein engineering.
- To develop a databank of PDB files with consistent B-factors.
Main Methods:
- Conversion of all B-factors to a single, consistent representation.
- Creation of the Databank of PDB files with consistent B-factors (BDB).
Main Results:
- A freely available databank (BDB) with standardized B-factors has been established.
- The BDB provides a homogeneous representation of atomic mobility.
Conclusions:
- The BDB facilitates more reliable protein engineering by providing consistent B-factor data.
- Standardized B-factors enhance the utility of PDB data for researchers.
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