PREDICTIONS OF MULTIMERIC GLOBULAR PROTEIN ASSEMBLY
Project Number1R03TW000418-01
Contact PI/Project LeaderSKOLNICK, JEFFREY
Awardee OrganizationSCRIPPS RESEARCH INSTITUTE, THE
Description
Abstract Text
The prediction of the three dimensional structure of a globular protein
from its amino acid sequence along with the elucidation of the mechanisms
by which proteins fold represent extremely important unsolved problems of
contemporary molecular biology. The overall objective of the proposed
FIRCA project which is an extension of a NIH Program Project, No. 2 PO1-
GM38794-O6 entitled, "Structural Basis of Protein Folding & Macromolecular
Assembly" is the development of a methodology to predict the secondary,
tertiary and quaternary structure along with the folding pathway of a
number of globular proteins from the amino acid sequence alone. The method
is based on a hierarchical approach to protein folding. First, high
resolution lattice models of proteins comprised of an alpha-carbon plus
reduced off lattice side chain description provide the overall folding
pathway and folded conformations. The resulting lattice structures are
estimated for the alpha-carbons to have a 2-4 Angstroms rms deviation from
the corresponding backbone atoms of the experimentally determined native
structure. These lattice structures will provide the set of predicted
secondary structure and side chain contact constraints which are used in
a molecular dynamics refinement protocol aimed at producing full atom
structures. In particular, the following will be addressed in this
proposal: (1). The methodology comprised of reduced, discretized models
designed to fold single domain, monomeric globular proteins will be
extended to treat multimeric proteins. Phenomenological interaction
parameters will be derived to reflect relative preferences for interfacial
interactions. (2). The methodology will be tested on series of four helix
bundles designed by DeGrado and coworkers and composed of four short
peptides, two longer peptides, and one long polypeptide, where the amino
acid sequence of the helical regions is highly simplified and the same in
all cases. (3). The folding of ROP dimer, whose native conformation is a
four helix coiled coil bundle formed from the association of two helical
hairpins, will be examined. The folding process and resulting quaternary
structure will be compared to that obtained for the redesigned monomeric
sequence. (4). The nature of the monomer-dimer equilibrium of avian
pancreatic polypeptide and crambin will be explored. These molecules
represent cases where both the isolated monomer and the multimeric form of
the globular protein are stable. (5). The stability of glucagon as a
function of the monomer-trimer equilibrium will be explored. This molecule
adopts well defined conformations only on association to trimers or higher
order multimers. (6). The folding process of insulin and proinsulin will
be addressed. This represents the very important situation where the
native conformation of a mature protein can be obtained only in the
preprocessed form; i.e., the mature protein is in a metastable state.
Public Health Relevance Statement
Data not available.
NIH Spending Category
No NIH Spending Category available.
Project Terms
chemical modelscomputer program /softwareconformationglobular proteinglucagonhydrogen bondinsulinintermolecular interactionproinsulinprotein foldingprotein sequenceprotein structure
John E. Fogarty International Center for Advanced Study in the Health Sciences
CFDA Code
DUNS Number
781613492
UEI
PHZJFZ32NKH4
Project Start Date
01-February-1994
Project End Date
31-January-1997
Budget Start Date
01-February-1994
Budget End Date
31-January-1995
Project Funding Information for 1994
Total Funding
$24,380
Direct Costs
$20,000
Indirect Costs
$4,380
Year
Funding IC
FY Total Cost by IC
1994
John E. Fogarty International Center for Advanced Study in the Health Sciences
$24,380
Year
Funding IC
FY Total Cost by IC
Sub Projects
No Sub Projects information available for 1R03TW000418-01
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