for the Administrative Supplement Any two, unrelated people have up to 10,000 amino acid differences among their proteins. To identify which are medically-relevant, current computer predictions make assumptions that are based, in part, on evolutionary information for each protein. However, these assumptions were derived from experiments that were heavily biased by substitutions at positions that do not change much during evolution (conserved). We previously found that these assumptions do not apply to the >50% of amino acid positions that are not conserved during evolution. We are using pyruvate kinase and aldolase as model systems to explore hypotheses about the origins of non-canonical functional outcomes that arise from substituting nonconserved positions. Our experi- mental results will lead to improved ?rules? for new computer analyses. Our experimental design requires the creation and characterization ~1000 amino acid variants, and a floor-model centrifuge is required for this work. We recently learned that Thermo-Fisher has discontinued support for all of the centrifuges owned by our lab and our department, and the centrifuge in our lab has broken. Therefore, we are requesting $32,000 to purchase a new model and compatible rotors.

Public Health Relevance

Personalized medicine: To identify medically-relevant changes in patient proteins, current tools make assum- ptions that are based, in part, on how each protein evolves. However, these assumptions do not apply to >50% of amino acid positions. Our experimental results will lead to improved ?rules? for new computer analyses

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
3R01GM118589-03S1
Application #
9962113
Study Section
Program Officer
Mcguirl, Michele
Project Start
2017-01-01
Project End
2020-12-31
Budget Start
2019-01-01
Budget End
2019-12-31
Support Year
3
Fiscal Year
2019
Total Cost
Indirect Cost
Name
University of Kansas
Department
Biochemistry
Type
Schools of Medicine
DUNS #
016060860
City
Kansas City
State
KS
Country
United States
Zip Code
66160
Schmit, Jeremy D; Kariyawasam, Nilusha L; Needham, Vince et al. (2018) SLTCAP: A Simple Method for Calculating the Number of Ions Needed for MD Simulation. J Chem Theory Comput 14:1823-1827
Hodges, Abby M; Fenton, Aron W; Dougherty, Larissa L et al. (2018) RheoScale: A tool to aggregate and quantify experimentally determined substitution outcomes for multiple variants at individual protein positions. Hum Mutat 39:1814-1826