PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003

By Tamotsu Noguchi, Y. Akiyama. 2003

94 citations recorded by the source corpus.

Subfields: Materials Chemistry, Molecular Biology

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Materials Chemistry

1. Ivet Bahar
2. Rachel Kolodny
3. Eran Eyal
4. Lee-Wei Yang
5. Mickey Kosloff

In Molecular Biology

1. Eran Eyal
2. Lee-Wei Yang
3. Ivet Bahar
4. Rachel Kolodny
5. Mickey Kosloff
6. Xin-Qiu Yao
7. Barry J. Grant

Citations in the corpus

• Network analysis of protein structures identifies functional residues. (2004, methodology): “These representative structures were retrieved from the PDB-REPRDB database, 65 and had the following properties: less than 30% sequence identity between the proteins, resolution !”
• Anisotropic network model: systematic evaluation and a new web interface (2006, methodology): “The test set of proteins was extracted from the January 2006 version of the PDB (Berman et al., 2000) using PDB-REPRDB (Noguchi and Akiyama, 2003), to include all crystal structures with resolution better than 2.5 Å, R-factor smaller than 0.3 Å and no missing coordinates.”
• Sequence-similar, structure-dissimilar protein pairs in the PDB (2007, background): “34 (4) Using global RMSD as a measure of dissimilarity understates relatively local changes in larger proteins.”