ARIZONA STATE UNIVERSITY - ACS Directory of Graduate Research

2 ARIZONA STATE
lecular Biology. My program develops & uses chemical
tools to study biological problems, & investigates synthetic
molecules in living systems. We examine the molecular
recognition properties of different biopolymer
systems by combining traditional synthetic organic
chemistry & molecular biology with functional genomics,
structural biology, & nanotechnology. This broad
range of expertise has created an interdisciplinary environment
capable of tackling significant problems in
health & science. TEL: (480) 727-0392 FAX: (480) 727-
0396
Web: www.biodesign.asu.edu/labs/chaput
Email: John.Chaput@asu.edu
CHIZMESHYA, ANDREW
Publication list has not been verified by the department.
Jesse B. Tice, Y.-Y. Fang, John Tolle, Andrew Chizmesh-
ya and J. Kouvetakis, Synthesis and Fundamental Studies of
Chlorinated Si-Ge Hydride Macromolecules for Strain Engi-
neering and Selective-Area Epitaxial Applications, Chem.
Mater, 20, 4374-4385 (2008).
FRANCISCO, WILSON A. (b.1966) Associate Pro-
fessor. B.S, 1987, University of Puerto Rico at Mayaguez;
Ph.D, 1993, Texas A&M University. Reseach Associate,
1994-1999, University of California at Berkeley.
G. Ghirlanda, Computational biochemistry: Old enzymes,
new tricks, Nature, 453, 164-6 (2008).
Raimund Fromme, Zivile Katiliene, Petra Fromme and
Giovanna Ghirlanda, Conformational gating of dimannose
binding to the antiviral protein cyanovirin revealed from the
crystal structure at 1.35 Å resolution, Protein Sci, 17, 939-
944 (2008).
JessicaTrxel, Membrane associated artificial mini enzyme
ME1: Expression and purification of me1 using BCL-XL expression
system. (M)
Yinan Liu, Dimeric mutants of cyanovirin-N provide in-
sight into the role of multivalent interactions with gp120 for
antiviral activity. (M)
B. A. Williams, K. Lund, Y. Liu, H. Yan and J. C. Chaput,
Self-assembled peptide nanoarrays: An approach to studying
protein-protein interactions, Angew Chem Int Ed Engl, 46,
3051-3054 (2007).
L. Lin, D. Hom, S. M. Lindsay and J. C. Chaput, In vitro
Biochemistry; Enzymology. The primary interest of my
research group is the understanding of the fundamental
principles of enzyme catalysis, in particular the elucidation
of the mechanism of oxygen and substrate activation
by metalloenzymes. TEL: (480) 965-7480 FAX: (480)
Federica Bogani, Creation of a bioactive glycoprotein mimetic
and preliminary results on the screening of a lectin li-
brary. (D)
Jeanine M. Cordova, Design, characterization and modula-
tion of a novel heme-binding membrane protein. (D)
selection of histone H4 aptamers for recognition imaging microscopy,
J Am Chem Soc, 129, 14568-14569 (2007).
S. S. Mansy, J Zhang, R Kümmerle, M Nilsson, J. J. Chou,
J. W. Szostak and J. C. Chaput, Structure and evolutionary
analysis of a non-biological ATP-binding protein, J Mol Biol,
37, 501-513 (2007).
Y. W. Yang, S Zhang, E. O. McCullum and J. C. Chaput,
Experimental evidence that GNA and TNA were not sequential
polymers in the prebiotic evolution of RNA, J Mol Evol,
65, 289-295 (2007).
M. D. Smith, M. A. Rosenow, M. Wang, J. P. Allen, J. W.
Szostak and J. C. Chaput, Structural insights into the evolution
of a non-biological protein: Importance of surface residues
in protein fold optimization, PLoS ONE, 2, e467 (2007).
J. L. Watkins and J. C. Chaput, Searching combinatorial libraries
for native proteins with novel folds, Chembiochem, 9,
1361-1363 (2008).
J. C. Chaput, N. W. Woodbury, L. A. Stearns and B. A.
Williams, Creating protein biocatalysts as tools for future industrial
applications, Expert Opin Biol Ther, 8, 1087-1098
(2008).
R. S. Zhang, E. O. McCullum and J. C. Chaput, Synthesis
of two mirror image 4-helix junctions derived from glycerol
nucleic acid, J Am Chem Soc, 130, 5846-5847 (2008).
Elizabeth McCullum, Development of tools and techniques
for use in structural DNA nanotechnology and the identification
of translational enhancer sequences by messenger RNA
display. (D)
CHEN, JULIAN (JIUNN-LIANG) (b.1968) Assistant
Professor. B.S, 1991, National Cheng Kung University,
Taiwan; Ph.D, 1997, Indiana University, Bloomington.
Postdoctoral Fellow, 1998-2003, Johns Hopkins
University School of Medicine; Research Associate,
2003-2004, Johns Hopkins University School of Medi-
cine. Biochemistry; Molecular Biology. We study the
structure, function and evolution of the telomerase RNP
enzyme, a unique reverse transcriptase essential for
maintaining telomere length in most eukaryotes. Telomeres
act as caps at the ends of chromosomes, and are
required for chromosome stability. Telomerase elongates
telomere length by adding telomeric repeats to chromosome
ends to counterbalance the natural shortening that
occurs during DNA replication. TEL: (480) 965-3650
FAX: (480) 965-2747
Web: www.chemistry.asu.edu
Email: jlchen@asu.edu
Y. Xiang, M. Xie, R. Bash, J. J-L Chen and J. Wang, Ultrasensitive
label-free aptamer-based electronic detection,
Angewandte Chemie, 46, 9054-9056 (2007).
Y. Li, J. A. Yates and J. J-L Chen, Identification and characterization
of sea squirt telomerase reverse transcriptase,
Gene, 400, 16-24 (2007).
A. Mosig, J. J-L Chen and P. F. Stadler, Proc. Worksh.
Alg. Bioinf. (WABI) 2007: Homology search with fragmented
nucleic acid sequence patterns, Lect. Notes Comput. Sc,
46, 335-345 (2007).
M. Armanios, J. J-L Chen, W. E. Lawson, J. K. Alder, R.
G. Ingersoll, C. Markin, M. Xie, J. Cogan, J. A. Philips III, P.
M. Lansdorp, C. W. Greider and J. E. Loyd, Telomerase mu-
tations in families with idiopathic pulmonary fibrosis, New
England Journal of Medicine, 356, 1317-1326 (2007).
Y. Ye, W. Wen, Y. Xiang, X. Qi, J. T. LaBelle, J. J-L
Chen and J. Wang, Direct electrochemical monitoring of
RNase activity, Electroanalysis, 20, 919-922 (2008).
M. Xie, A. Mosig, X. Qi, Y. Li, P. F. Stadler and J. J-L
Chen, Structure and function of the smallest vertebrate telomerase
RNA from teleost fish, Journal of Biological Chemistry,
283, 2049-2059 (2008).
J. D. Podlevsky, C. J. Bley, R. V. Omana, X. Qi and J. J-L
Chen, The telomerase database, Nucleic Acids Research, 36,
D339-D343 (2008).
J. K. Alder, J. J-L Chen, L. Lancaster, S. Danoff, S. C. Su,
965-2747
Web: chemistry.asu.edu/faculty/WFrancisco.asp
Email: wfrancisco@asu.edu
M. L. Medina and W. A. Francisco, Isolation and enrich-
ment of secreted proteins from Filamentous Fungi, Methods
in Molecular Biology, 425, 275-281 (2008).
FROMME, PETRA (b.1961) Professor. B.S, 1982,
Free University Berlin; Ph.D, 1988, Technical University
Berlin. Researcher, 1988-1992, Technical University
Berlin. Biochemistry; Biophysics/Biophysical Chemistry.
Structural biochemistry and biophysics of membrane
proteins, photosynthesis, structure and function of photosystem
I and II, crystallization of membrane proteins,
mechanism of electron and excitation energy transfer.
TEL: (480) 965-9028 FAX: (480) 965-2747
Web: www.public.asu.edu/~pfromme/
Email: pfromme@mainex1.asu.edu
Publication list has not been verified by the department.
Raimund Fromme, Zivile Katiliene, Barbara Giomarelli,
Federica Bogani, James McMahon, Toshiyuki Mori, Petra
Fromme and Giovanna Ghirlanda, A Monovalent Mutant of
Cyanovirin-N Provides Insight into the Role of Multiple Interactions
with gp120 for Antiviral Activity, Biochemistry,
46, 9199-9207 (2007).
Kerry J. Riley, Tonu Reinot, Ryszard Jankowiak, Petra
Fromme and Valter Zazubovich, Red antenna states of photo-
system I from cyanobacteria Synechocystis PCC 6803 and
Thermosynechococcus elongatus: Single-complex spectroscopy
and spectral hole-burning study, J. Phys. Chem. B, 111,
286-292 (2007).
Benjamin Varco-Merth, Raimund Fromme, Meitian Wang
and Petra Fromme, Crystallization of the c14-rotor of the
chloroplast ATP synthase reveals that it contains pigments,
Biochim. Biophys. Acta, Bioenerg, 1777, 605-612 (2008).
Craig C. Jolley, Stephen A. Wells, Petra Fromme and M.
F. Thorpe, Fitting low-resolution cryo-EM maps of proteins
using constrained geometric simulations, Biophys. J, 94,
1613-1621 (2008).
Raimund Fromme, Ingo Grotjohann and Petra Fromme,
Structure and function of photosystem I, Compr. Ser. Photo-
chem. Photobiol. Sci, 9, 111-146 (2008).
Yanina Sarah DeRuyter and Petra Fromme, Molecular
structure of the photosynthetic apparatus, Cyanobacteria,
217-269 (2008).
Raimund Fromme, Zivile Katiliene, Petra Fromme and
Giovanna Ghirlanda, Conformational gating of dimannose
binding to the antiviral protein cyanovirin revealed from the
crystal structure at 1.35 Å resolution, Protein Sci, 17, 939-
944 (2008).
GHIRLANDA, GIOVANNA (b.1967) Assistant Pro-
fessor. B.S, 1991, University of Padua; Ph.D, 1996, University
of Padua. Postdoctoral Research Assistant, 1996-
2000, University of Pennsylvania. Bioorganic Chemistry.
Electron transfer in biological membranes: De novo designed
membrane soluble, heme-binding proteins as
models of cytochrome bc1; catalysis of redox reactions.
De novo design of biomimetic proteins. Protein engineering
of antiviral lectins. TEL: (480) 965-6645 FAX:
(480) 965-2747
Web: www.public.asu.edu/~gghirlan/
Email: gghirlanda@asu.edu
Raimund Fromme, Zivile Katiliene, Barbara Giomarelli,
Federica Bogani, James McMahon, Toshiyuki Mori, Petra
Fromme and Giovanna Ghirlanda, A Monovalent Mutant of
Cyanovirin-N Provides Insight into the Role of Multiple Interactions
with gp120 for Antiviral Activity, Biochemistry,
46, 9199-9207 (2007).
Jeanine M. Cordova, Pamela L. Noack, Simon A. Hilcove,
James D. Lear and Giovanna Ghirlanda, Design of a Functional
Membrane Protein by Engineering a Heme-Binding
GOULD, IAN R. (b.1957) Professor. B.Sc, 1977, Uni-
versity of Manchester; M.Sc, 1978, University of Manchester;
Ph.D, 1980, University of Manchester. Postdoctoral
Fellow, 1981-1986, Columbia University. Organic
Chemistry; Photochemistry. Organic photochemistry and
photophysics, electron transfer reactions, organic radical
ions, fast reaction kinetics. TEL: (480) 965-7278 FAX:
(480) 965-2747
Web: www.public.asu/~iangould/
Email: igould@asu.edu
Publication list has not been verified by the department.
Patricia A. Hunt, Ian R. Gould and Barbara Kirchner, The
Structure of Imidazolium-Based Ionic Liquids: Insights From
Ion-Pair Interactions, Aust. J. Chem, 60, 9-14 (2007).
Paul M. Donaldson, Rui Guo, Frederic Fournier, Elizabeth
M. Gardner, Laura M. C. Barter, Chris J. Barnett, Ian R.
Gould, David R. Klug, D. Jason Palmer and Keith R. Willison,
Direct identification and decongestion of Fermi resonances
by control of pulse time ordering in two-dimensional
IR spectroscopy, J. Chem. Phys, 127, 114513/1-114513/10
(2007).
Ian R. Gould, Hoda Abdel-Aal Bettley and Richard A.
Bryce, Correlated ab initio quantum chemical calculations of
di- and trisaccharide conformations, J. Comput. Chem, 28,
1965-1973 (2007).
Lula Rosso and Ian R. Gould, Structure and dynamics of
phospholipid bilayers using recently developed general allatom
force fields, J. Comput. Chem, 29, 24-37 (2007).
Ross C. Walker, Ian P. Mercer, Ian R. Gould and David R.
Klug, Comparison of basis set effects and the performance of
ab initio and DFT methods for probing equilibrium fluctua-
tions, J. Comput. Chem, 28, 478-490 (2007).
Yingsheng Wang, Olesya Haze, Joseph P. Dinnocenzo, Sa-
mir Farid, Ramy S. Farid and Ian R. Gould, Bonded Exciplexes.
A New Concept in Photochemical Reactions, J. Org.
Chem, 72, 6970-6981 (2007).
Ian R. Gould and Samir Farid, Radiationless Decay in Exciplexes
with Variable Charge Transfer, J. Phys. Chem. B,
111, 6782-6787 (2007).
Frederic Fournier, Elizabeth M. Gardner, Rui Guo, Paul M.
Donaldson, Laura M. C. Barter, D. Jason Palmer, Chris J.
Barnett, Keith R. Willison, Ian R. Gould and David R. Klug,
Optical fingerprinting of peptides using two-dimensional infrared
spectroscopy: Proof of principle, Anal. Biochem, 374,
358-365 (2008).
Paul M. Donaldson, Rui Guo, Frederic Fournier, Elizabeth
M. Gardner, Ian R. Gould and David R. Klug, Decongestion
of methylene spectra in biological and non-biological systems
using picosecond 2DIR spectroscopy measuring elec-
tron-vibration-vibration coupling, Chem. Phys, 350, 201-211
(2008).
Paul M. Donaldson, Rui Guo, Frederic Fournier, Elizabeth
M. Gardner, Laura M. C. Barter, Chris J. Barnett, Ian R.
Gould, David R. Klug, D. Jason Palmer and Keith R. Willison,
Direct identification and decongestion of Fermi resonances
by control of pulse time ordering in two-dimensional
IR spectroscopy. [Erratum to document cited in CA148:
019860], J. Chem. Phys, 127, 239901/1 (2008).
Lula Rosso, Antony D. Gee and Ian R. Gould, Ab initio
computational study of positron emission tomography ligands
interacting with lipid molecule for the prediction of
nonspecific binding, J. Comput. Chem, 29, 2397-2405
(2008).
Yingsheng Wang, Olesya Haze, Joseph P. Dinnocenzo, Samir
Farid, Ramy S. Farid and Ian R. Gould, Bonded Exciplex
Formation: Electronic and Stereoelectronic Effects, J. Phys.
Chem. A, 112, 13088-13094 (2008).
Frederic Fournier, Elizabeth M. Gardner, Darek A. Kedra,
Paul M. Donaldson, Rui Guo, Sarah A. Butcher, Ian R.
Gould, Keith R. Willison and David R. Klug, Protein identification
and quantification by two-dimensional infrared spectroscopy:
implications for an all-optical proteomic platform,
Proc. Natl. Acad. Sci. U. S. A, 105, 15352-15357 (2008).
M. Prince, I. Vulto, M. Xie, X. Qi, R. M. Tuder, J. A. Phillips,
P. M. Lansdorp, J. E. Loyd and M. Y. Armanios, Short
telomeres are a risk factor for idiopathic pulmonary fibrosis,
Proc. Natl. Acad. Sci. U.S.A, 105, 13051-13056 (2008).
Jiunn-Liang Chen, Structure of ribonuclease P RNA. (D)
Site in Glycophorin A, J. Am. Chem. Soc, 129, 512-518
(2007).
Justin Spiriti, Federica Bogani, Arjan van der Vaart and
Giovanna Ghirlanda, Modulation of protein stability by O-
glycosylation in a designed Gc-MAF analog, Biophys. Chem,
134, 157-167 (2008).
GUST, DEVENS (b.1944) Professor. B.S, 1967, Stan-
ford University; M.A, 1972, Princeton University; Ph.D,
1974, Princeton University. Research Associate, 1974-
1975, California Institute of Technology. Organic Chem-
istry; Photochemistry. Artificial photosynthesis and solar