Continuous Automated Model EvaluatiOn (CAMEO) is a community-wide project to continuously evaluate the accuracy and reliability of
protein structure prediction
Protein structure prediction is the inference of the three-dimensional structure of a protein from its amino acid sequence—that is, the prediction of its secondary and tertiary structure from primary structure. Structure prediction is differen ...
servers in a fully automated manner. CAMEO is a continuous and fully automated complement to the bi-annual
CASP
Critical Assessment of Structure Prediction (CASP), sometimes called Critical Assessment of Protein Structure Prediction, is a community-wide, worldwide experiment for protein structure prediction taking place every two years since 1994. CASP prov ...
experiment.
Currently, CAMEO evaluates predictions for predicted
three-dimensional protein structures (3D),
ligand binding site predictions in proteins (LB), and model quality estimation tools (QE).
Workflow
CAMEO performs blind assessment of
protein structure prediction
Protein structure prediction is the inference of the three-dimensional structure of a protein from its amino acid sequence—that is, the prediction of its secondary and tertiary structure from primary structure. Structure prediction is differen ...
techniques based on the weekly releases of newly determined experimental structures by the
Protein Databank (PDB). The
amino acid sequence
Protein primary structure is the linear sequence of amino acids in a peptide or protein. By convention, the primary structure of a protein is reported starting from the amino-terminal (N) end to the carboxyl-terminal (C) end. Protein biosynthesi ...
s of soon to be released protein structures are submitted to the participating web-servers. The web-servers return their predictions to CAMEO, and predictions received before the experimental structures have been released are included in the assessment of prediction accuracy. In contrast to the
CASP
Critical Assessment of Structure Prediction (CASP), sometimes called Critical Assessment of Protein Structure Prediction, is a community-wide, worldwide experiment for protein structure prediction taking place every two years since 1994. CASP prov ...
experiment, the comparison between prediction and reference data is fully automated, and therefore requires numerical distance measures which are robust against relative
domain
Domain may refer to:
Mathematics
*Domain of a function, the set of input values for which the (total) function is defined
** Domain of definition of a partial function
**Natural domain of a partial function
**Domain of holomorphy of a function
*Do ...
movements.
History
CAMEO was developed as part of the
Protein Model Portal module of the Structural Biology Knowledge Base
as part of the
Protein Structure Initiative
The Protein Structure Initiative (PSI) was a USA based project that aimed at accelerating discovery in structural genomics and contribute to understanding biological function. Funded by the U.S. National Institute of General Medical Sciences (NIGM ...
. CAMEO is being developed by the computational structural biology group at the SIB
Swiss Institute of Bioinformatics
The SIB Swiss Institute of Bioinformatics is an academic not-for-profit foundation which federates bioinformatics activities throughout Switzerland.
The institute was established on 30 March 1998 and its mission is to provide core bioinfor ...
and the
Biozentrum, University of Basel
The Biozentrum of the University of Basel specializes in basic molecular and biomedical research and teaching. Research includes the areas of cell growth and development, infection biology, neurobiology, structural biology and biophysics, and ...
.
Earlier projects with similar aims were
EVA and
LiveBench LiveBench is a continuously running benchmark project for assessing the quality of protein structure prediction and secondary structure prediction methods. LiveBench focuses mainly on homology modeling and protein threading but also includes seco ...
.
See also
*
Protein structure prediction software
This list of protein structure prediction software summarizes notable used software tools in protein structure prediction, including homology modeling, protein threading, ''ab initio'' methods, secondary structure prediction, and transmembrane h ...
References
{{reflist, 1
External links
CAMEO home pageProtein Model Portal
Bioinformatics
Computational chemistry