Enter the text here that is the new abstract information for your application. This section must be no longer than 30 lines of text. Project Summary (no changes): The primary goal of this project is to provide the infrastructure for the Critical Assessment of Structure Prediction (CASP) program, dedicated to the objective evaluation of macromolecular structure modeling methods. Extensive knowledge of protein and RNA structures will significantly aid the investigation of macromolecular function, interactions, and biochemical pathways. It will also have a major impact on the understanding of biology and human disease, and eventually on drug design. Experimental determination of structure is inherently time-consuming and costly. For macromolecules that have not been addressed by experiment, a computational modeling approach often provides an alternative. Modeling methods, however, are continually evolving and vary in their effectiveness. The CASP process was established to answer two main questions: First, what level of modeling quality can be expected of these techniques? And second, which methods offer the most promise for continued development? CASP is a community-wide program, with over 200 research groups world-wide submitting over 85,000 predictions in the last round. Our group is the primary infrastructure resource for CASP, and handles processing of predictions, develops and implements evaluation software, performs prediction assessment, develops analysis and display tools, and facilitates access to predictions and their evaluation data. We propose to support the current biennial operation of CASP and to expand it by the addition of assessments performed on a continuing basis. To increase the supply of interesting modeling targets we will systematically broaden the network of collaborating crystallography and NMR spectroscopy research groups, including new centers dedicated to the determination of structure of membrane proteins. The expanded network will also be capable of providing the still rare RNA structures, allowing extension of CASP to the assessment of RNA structure modeling. To help overcome the most significant obstacles to progress in structure prediction, we will add a class of specialized assessments focused on specific stages of the modeling process, providing a means of evaluating the performance of these individual steps. Finally, we will place special emphasis on interactions with teachers and researchers throughout academia, with the goal of disseminating the insights and wealth of data gained through CASP.

Public Health Relevance

(no changes): Knowledge of macromolecular structure plays a crucial role in biology and medicine, allowing for detailed studies and understanding of biological processes and disease mechanisms. Yet, relatively few structures are obtained experimentally - the rest must be modeled. The Critical Assessment of Structure Prediction program (CASP), provides the primary means of evaluating performance of the methods dedicated to this task.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
5R01GM100482-02
Application #
8484848
Study Section
Special Emphasis Panel (ZRG1-BCMB-B (02))
Program Officer
Wehrle, Janna P
Project Start
2012-06-15
Project End
2016-04-30
Budget Start
2013-05-01
Budget End
2014-04-30
Support Year
2
Fiscal Year
2013
Total Cost
$507,120
Indirect Cost
$177,821
Name
University of California Davis
Department
Genetics
Type
Schools of Arts and Sciences
DUNS #
047120084
City
Davis
State
CA
Country
United States
Zip Code
95618
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Monastyrskyy, Bohdan; Kryshtafovych, Andriy; Moult, John et al. (2014) Assessment of protein disorder region predictions in CASP10. Proteins 82 Suppl 2:127-37
Kryshtafovych, Andriy; Barbato, Alessandro; Fidelis, Krzysztof et al. (2014) Assessment of the assessment: evaluation of the model quality estimates in CASP10. Proteins 82 Suppl 2:112-26
Monastyrskyy, Bohdan; D'Andrea, Daniel; Fidelis, Krzysztof et al. (2014) Evaluation of residue-residue contact prediction in CASP10. Proteins 82 Suppl 2:138-53
Kryshtafovych, Andriy; Monastyrskyy, Bohdan; Fidelis, Krzysztof (2014) CASP prediction center infrastructure and evaluation measures in CASP10 and CASP ROLL. Proteins 82 Suppl 2:7-13
Kryshtafovych, Andriy; Fidelis, Krzysztof; Moult, John (2014) CASP10 results compared to those of previous CASP experiments. Proteins 82 Suppl 2:164-74
Moult, John; Fidelis, Krzysztof; Kryshtafovych, Andriy et al. (2014) Critical assessment of methods of protein structure prediction (CASP)--round x. Proteins 82 Suppl 2:1-6
Kryshtafovych, Andriy; Moult, John; Bales, Patrick et al. (2014) Challenging the state of the art in protein structure prediction: Highlights of experimental target structures for the 10th Critical Assessment of Techniques for Protein Structure Prediction Experiment CASP10. Proteins 82 Suppl 2:26-42