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CAPS Database

It is a structural classification of helix-cappings or caps compiled from protein structures. Caps extracted from protein structures have been structurally classified based on geometry and conformation and organized in a tree-like hierarchical classification where the different levels correspond to different properties of the caps. CASP-DB is fully browsable and searchable and is regularly updated. The regions of the polypeptide chain immediately preceding or following an ��������-helix are known as Nt- and Ct cappings, respectively. Cappings play a central role stabilizing ��������-helices due to lack of intrahelical hydrogen bonds in the first and last turn. Sequence patterns of amino acid type preferences have been derived for cappings but the structural motifs associated to them are still unclassified. CAPS-DB is a database of clusters of structural patterns of different capping types. The clustering algorithm is based in the geometry and the (��������-����?)-space conformation of these regions. CAPS-DB is a relational database that allows the user to search, browse, inspect and retrieve structural data associated to cappings. The contents of CAPS-DB might be of interest to a wide range of scientist covering different areas such as protein design and engineering, structural biology and bioinformatics. CapsDB v4.0 * PDB structures: 4591 * Number of clusters: 859 * Number of caps: 31452

URL: http://www.bioinsilico.org/cgi-bin/CAPSDB/staticHTML/home

Resource ID: nlx_149414     Resource Type: Resource     Version: Latest Version


structural classification, helix-capping, protein engineering, clustering

Funding Information

Research Councils United Kingdom, Leeds Institute of Molecular Medicine, MICINN, FEDER, BIO2011-22568

Additional Resource Types




Resource Status

Last checked up;

Related To




Parent Organization


CAPS - Database

Curation Status


Alternate URLs


Resource PubMed IDs

PMID: 22021380, PMID: 22144685

Original Submitter


Version Status


Submitted On

12:00am July 31, 2012

Originated From


Changes from Previous Version

First Version

Version 1

Created 3 years ago by Anonymous