ArticleProtein science : a publication of the Protein Society2003
Rationally selected basis proteins: a new approach to selecting proteins for spectroscopic secondary structure analysis.
Article in Protein science : a publication of the Protein Society, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed.
- Protein secondary structure determined from independent and integrated infra-red absorbance and circular dichroism data using the algorithm SELCON.QRB discovery · 2025Article
- Oncogenic CALR mutant C-terminus mediates dual binding to the thrombopoietin receptor triggering complex dimerization and activation.Nature communications · 2023Article
- SOMSpec as a General Purpose Validated Self-Organising Map Tool for Rapid Protein Secondary Structure Prediction From Infrared Absorbance Data.Frontiers in chemistry · 2021Article
- Article
- A convenient protein library for spectroscopic calibrations.Computational and structural biotechnology journal · 2020Article
- MARTINI bead form factors for the analysis of time-resolved X-ray scattering of proteins.Journal of applied crystallography · 2014Article
- Electrostatic frequency shifts in amide I vibrational spectra: direct parameterization against experiment.The Journal of chemical physics · 2013Article
- Identification of peptides derived from the human antimicrobial peptide LL-37 active against biofilms formed by Pseudomonas aeruginosa using a library of truncated fragments.Antimicrobial agents and chemotherapy · 2012Article
- Protein refolding is required for assembly of the type three secretion needle.Nature structural & molecular biology · 2010Article
- Combining sequence-based prediction methods and circular dichroism and infrared spectroscopic data to improve protein secondary structure determinations.BMC bioinformatics · 2008Article
- Evaluation of the information content in infrared spectra for protein secondary structure determination.Biophysical journal · 2006Article
- Columba: an integrated database of proteins, structures, and annotations.BMC bioinformatics · 2005Article
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3 authors.
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Abstract
Protein basis sets have been extensively used as reference data for the determination of protein structure with optical methods such as circular dichroism and infrared spectroscopies. We have taken a new approach to basis protein selection by utilizing three crystal structure classification databases: CATH, SCOP, and PDB_SELECT. Through the use of the information available in these and other online resources, we identified 115 commercially available proteins as potential basis set candidates. By carefully screening the quality of the crystal structures and commercial protein preparations, we obtained a final set of 50 rationally selected proteins (RaSP50) that has been optimized for use in spectroscopic protein structure determination studies. These proteins span the full range of known protein folds as well as alpha-helix and beta-sheet contents, and they represent a more comprehensive variety of fold types than any previous reference set. This report includes a detailed presentation of the reasoning behind the rational protein selection process, a description of the properties of the RaSP50 set, and a discussion of the types of structural and spectral variations that are represented in the set.
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