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Author:

Chakravorty, Dhruva Kumar

Title:

HYBRID QUANTUM/CLASSICAL MOLECULAR DYNAMICS SIMULATIONS OF HYDROGEN TRANSFER REACTIONS IN ENZYMES

Graduate Program:

Chemistry

Keywords:

DLPROTEIN
EVB
DHFR
ketosteroid isomerase
KSI
WHAM
Umbrella Integration
hydrogen transfer

File:

Download thesis15-1.pdf

Committee Members:

Prof Sharon Hammes Schiffer, Dissertation Advisor/Co-Advisor
Prof Sharon Hammes Schiffer, Committee Chair/Co-Chair
James Bernhard Anderson, Committee Member
Philip C. Bevilacqua, Committee Member
James David Kubicki, Committee Member

Author:

Moody, Ellen Marie

Title:

Stability in Nucleic Acid Hairpins: 1. Molecular Determinants of Cooperativity and 2. Linkage between Proton Binding and Folding

Graduate Program:

Chemistry

Keywords:

RNA
DNA
pKa shifting
cooperativity
expandability
thermodynamics

File:

Download EMM_thesis.pdf

Committee Members:

Philip C. Bevilacqua, Committee Chair/Co-Chair
Christopher Falzone, Committee Member
Juliette T J Lecomte, Committee Member
James Gregory Ferry, Committee Member

Author:

Oh, Hyung Suk

Title:

INSIGHT INTO POLIOVIRUS GENOME REPLICATION AND ENCAPSIDATION REVEALED FROM MOLECULAR CHARACTERIZATION OF 3B-3C CLEAVAGE SITE MUTANTS

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

cleavage site mutant
polyprotein processing
replication
poliovirus
complementation

File:

Download Oh_Dissertation_111809.pdf

Committee Members:

Craig Eugene Cameron, Dissertation Advisor/Co-Advisor
Craig Eugene Cameron, Committee Chair/Co-Chair
Kenneth Charles Keiler, Committee Member
B Tracy Nixon, Committee Member
Joseph C. Reese, Committee Member
Philip C. Bevilacqua, Committee Member

Author:

Knappenberger, Jane A

Title:

MODULATION OF THERMODYNAMIC AND KINETIC PROPERTIES IN b HEMOPROTEINS: CHARACTERIZATION OF A FAMILY OF PsaE-CYTOCHROME b5 CHIMERAS AND SYNECHOCYSTIS sp. PCC 6803 HEMOGLOBIN

Graduate Program:

Chemistry

Keywords:

b hemoproteins
thermodynamic stability
urea-gradient gel electrophoresis
folding kinetics
loop anchor modification

File:

Download thesis.pdf

Committee Members:

Juliette T J Lecomte, Committee Chair/Co-Chair
Philip C. Bevilacqua, Committee Member
Alan James Benesi, Committee Member
B Tracy Nixon, Committee Member

Author:

Keighron, Jacqueline D

Title:

NANOPARTICLE BIOCONJUGATES AS “BOTTOM-UP” ASSEMBLIES OF ARTIFICAL MULTIENZYME COMPLEXES

Graduate Program:

Chemistry

Keywords:

multienzyme complex
specific activity
bioconjugate

File:

Download keighronfinal.pdf

Committee Members:

Christine Dolan Keating, Dissertation Advisor/Co-Advisor
Christine Dolan Keating, Committee Chair/Co-Chair
Philip C. Bevilacqua, Committee Member
Scott A Showalter, Committee Member
Peter J Butler, Committee Member

Author:

Sokoloski, Joshua Edward

Title:

Calorimetric Studies of Site-Specific Ligand Binding By RNA

Graduate Program:

Chemistry

Keywords:

Isothermal Titration Calorimetry
RNA

File:

Download JES_Sokoloski_Dissertation_F11_Corrected.pdf

Committee Members:

Philip C. Bevilacqua, Dissertation Advisor/Co-Advisor
Philip C. Bevilacqua, Committee Chair/Co-Chair
Scott A Showalter, Committee Member
David Lawrence Allara, Committee Member
Song Tan, Committee Member

Author:

Younker, Jarod Michael

Title:

Development and Application of Optimizations in Computational Chemistry

Graduate Program:

Chemistry

Keywords:

Chloroperoxidase
P450
Rate Equations
Principal Components Analysis
Numerical Optimizations
Adomian Decomposition
Density Functional Theory
Ribonucleotide Reductase

File:

Download JarodYounker-Dissertation.pdf

Committee Members:

Michael Thomas Green, Dissertation Advisor/Co-Advisor
Michael Thomas Green, Committee Chair/Co-Chair
Joseph M Bollinger Jr., Committee Member
Carsten Krebs, Committee Member
Philip C. Bevilacqua, Committee Member
James David Kubicki, Committee Member

Author:

Blose, Joshua Matthew

Title:

ELUCIDATING THERMODYNAMIC RELATIONSHIPS IN THE RNA STRUCTURAL HIERARCHY: MOLECULAR ORIGINS OF STABILITY

Graduate Program:

Chemistry

Keywords:

Cooperative Folding
Thermophilic Adaptation
Tetraloop
RNA
Nonlinear Poisson-Boltzmann
NLPB
Electrostatics

File:

Download JMB_Dissertation_082009.pdf

Committee Members:

Philip C. Bevilacqua, Dissertation Advisor/Co-Advisor
Philip C. Bevilacqua, Committee Chair/Co-Chair
Sharon Hammes Schiffer, Committee Member
Tae Hee Lee, Committee Member
Kenneth Charles Keiler, Committee Member

Author:

Hwang, Jungwook

Title:

BIOLOGICAL AND BIOCHEMICAL STUDIES OF HCV NS5A PROTEIN: FUNCTIONS IN GENOME REPLICATION AND ANTAGONISM OF THE INNATE IMMUNE RESPONSE

Graduate Program:

Integrative Biosciences

Keywords:

HCV
NS5A
PKA phosphorylation
RNA binding protein
PKR

File:

Download dissertation-Jungwook_Hwang.pdf

Committee Members:

Craig Eugene Cameron, Committee Chair/Co-Chair
Philip C. Bevilacqua, Committee Member
Harriet C Isom, Committee Member
Kouacou Konan, Committee Member
Joseph C. Reese, Committee Member

Author:

Cederquist, Kristin Baine

Title:

Hairpin Nucleic Acid Probes for Metal Nanowire-Based Surface Studies and Biosensing.

Graduate Program:

Chemistry

Keywords:

surface characterization
spectroscopy
nanotechnology
fluorescence
bioconjugate synthesis
biochemical interactions
bioassays
multiplexed sensing

File:

Download kbcederquist_dissertation.pdf

Committee Members:

Christine Dolan Keating, Dissertation Advisor/Co-Advisor
Christine Dolan Keating, Committee Chair/Co-Chair
Philip C. Bevilacqua, Committee Member
Thomas E Mallouk, Committee Member
James Hansell Adair, Committee Member