The protein coil library: A structural database of nonhelix, nonstrand fragments derived from the PDB

Nicholas C. Fitzkee; Patrick J. Fleming; George D. Rose

doi:10.1002/prot.20394

The protein coil library: A structural database of nonhelix, nonstrand fragments derived from the PDB

Nicholas C. Fitzkee, Patrick J. Fleming, George D. Rose

School of Medicine

Research output: Contribution to journal › Article › peer-review

84 Scopus citations

Abstract

Approximately half the structure of folded proteins is either α-helix or β-strand. We have developed a convenient repository of all remaining structure after these two regular secondary structure elements are removed. The Protein Coil Library (http://roselab.jhu.edu/coil/) allows rapid and comprehensive access to non-α-helix and non-β-strand fragments contained in the Protein Data Bank (PDB). The library contains both sequence and structure information together with calculated torsion angles for both the backbone and side chains. Several search options are implemented, including a query function that uses output from popular PDB-culling servers directly. Additionally, several popular searches are stored and updated for immediate access. The library is a useful tool for exploring conformational propensities, turn motifs, and a recent model of the unfolded state.

Original language	English (US)
Pages (from-to)	852-854
Number of pages	3
Journal	Proteins: Structure, Function and Genetics
Volume	58
Issue number	4
DOIs	https://doi.org/10.1002/prot.20394
State	Published - Mar 1 2005

Keywords

Protein conformation
Protein structure
Random coil
Secondary structure
Statistical coil

ASJC Scopus subject areas

Structural Biology
Biochemistry
Molecular Biology

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10.1002/prot.20394

Cite this

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abstract = "Approximately half the structure of folded proteins is either α-helix or β-strand. We have developed a convenient repository of all remaining structure after these two regular secondary structure elements are removed. The Protein Coil Library (http://roselab.jhu.edu/coil/) allows rapid and comprehensive access to non-α-helix and non-β-strand fragments contained in the Protein Data Bank (PDB). The library contains both sequence and structure information together with calculated torsion angles for both the backbone and side chains. Several search options are implemented, including a query function that uses output from popular PDB-culling servers directly. Additionally, several popular searches are stored and updated for immediate access. The library is a useful tool for exploring conformational propensities, turn motifs, and a recent model of the unfolded state.",

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AU - Fleming, Patrick J.

AU - Rose, George D.

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KW - Statistical coil

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The protein coil library: A structural database of nonhelix, nonstrand fragments derived from the PDB

Abstract

Keywords

ASJC Scopus subject areas

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