• Publications
  • Influence
The Protein Data Bank
TLDR
The goals of the PDB are described, the systems in place for data deposition and access, how to obtain further information and plans for the future development of the resource are described.
The FAIR Guiding Principles for scientific data management and stewardship
TLDR
This Comment is the first formal publication of the FAIR Principles, and includes the rationale behind them, and some exemplar implementations in the community.
Protein structure alignment by incremental combinatorial extension (CE) of the optimal path.
A new algorithm is reported which builds an alignment between two protein structures. The algorithm involves a combinatorial extension (CE) of an alignment path defined by aligned fragment pairs
The RCSB Protein Data Bank: redesigned web site and web services
TLDR
The next generation of the RCSB PDB web site, as described here, provides a rich resource for research and education and enables a range of new possibilities to analyze and understand structure data.
ElliPro: a new structure-based tool for the prediction of antibody epitopes
TLDR
ElliPro is a web-tool that implements Thornton's method for identifying continuous epitopes in the protein regions protruding from the protein's globular surface and, together with a residue clustering algorithm, the MODELLER program and the Jmol viewer, allows the prediction and visualization of antibody epitope in a given protein sequence or structure.
The Protein Data Bank.
TLDR
The goals of the PDB are described, the systems in place for data deposition and access, how to obtain further information, and near-term plans for the future development of the resource are described.
The RCSB Protein Data Bank: views of structural biology for basic and applied research and education
TLDR
Recently introduced data annotations including integration with external biological resources, such as gene and drug databases, new visualization tools and improved support for the mobile web are described.
The RCSB Protein Data Bank: new resources for research and education
TLDR
Improved methods for simple and complex searches of PDB data, creating specialized access to chemical component data and providing domain-based structural alignments enable new opportunities for analyzing and understanding structure data.
The Protein Data Bank and the challenge of structural genomics
The PDB has created systems for the processing, exchange, query, and distribution of data that will enable many aspects of high throughput structural genomics.
The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema
TLDR
The Research Collaboratory for Structural Bioinformatics (RCSB) has completely redesigned its resource for the distribution and query of 3D structure data, expanding the functionality of the existing site by providing structure data in greater detail and uniformity, improved query and enhanced analysis tools.
...
...