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Putnam C.D., Hammel M., Hura, G.L., Tainer, J. A. 2007. Modeling
flexible and disordered molecular assemblies using X-ray crystallography
and small-angle X-ray scattering. Quart. Rev. Biophysics. In press.
Kolodner, R.D., Mendillo, M. L., Putnam, C.D. 2007. Coupling
distant sites in DNA during DNA mismatch repair. Proc Natl Acad
Sci USA. 104, 12953-12954.
Shell, S., Putnam, C.D., and Kolodner, R.D. 2007. Biochemical
and genetic analysis of an Msh6 derivative with the mispair recognition
specificity of Msh3. Proc Natl Acad Sci USA. 104: 10956-10961.
Mendillo M.*, Putnam, C.D.*, and Kolodner, R.D. 2007. Escherichia
coli MutS tetramer solution structure and crystal structure of
tetramerization domain reveals that tetramerization is not required
for mismatch repair. J. Biol. Chem. 282, 16345-16354.
(*Equal contribution.)
Shell, S.*, Putnam, C.D.*, and Kolodner, R.D. 2007. The
N-terminus of yeast Msh6 is an unstructured tether to PCNA.
Molecular Cell. 26, 565-578. (*Equal contribution)
Aksentijevich, I.*, Putnam, C.D.*, Remmers, E.F., Mueller, J.L.,
Le, J., Kolodner, R.D., Moak, Z., Chuang, M., Austin, F.,
Goldbach-Mansky, R., Hoffman, H.M., and Kastner, D.L. 2006. The clinical
continuum of cryopyrinopathies: novel CIAS1 mutations in the North
American cohort of patients and a new cryopyrin model. Arthritis
Rheumatology 56, 1273-1285. (*Equal contribution.)
KH Schmidt, V Pennaneach, CD Putnam, RD Kolodner. 2006.
Analysis of gross chromosomal rearrangements in Saccharomyces
cerevisiae. Methods in Enzymology 409: 462-476.
V Pennaneach, CD Putnam, RD Kolodner. 2006. Chromosome healing by
de novo telomere addition in Saccharomyces cerevisiae.
Molecular Microbiology 59: 1357-1368.
CD Putnam, JA Tainer. 2005. Protein mimicry of DNA and
pathway regulation. DNA Repair 4: 1410-1420.
CD Putnam, V Pennaneach, RD Kolodner. 2005. Saccharomyces
cerevisiae as a model system to define the chromosomal instability
phenotype. Molecular and Cellular Biology 25: 7226-7238.
Y Wang, CD Putnam, MF Kane, W Zhang, L Edelmann, R Russell,
DV Carrion, L Chin, R Kucherlapati, RD Kolodner. 2005. Mutation in
Rpa1 results in defective DNA double-strand break repair, chromosomal
instability and cancer in mice. Nature Genetics 37: 750-755.
CD Putnam, V Pennaneach, RD Kolodner. 2004. Chromosome
healing through terminal deletions generated by de novo
telomere additions in Saccharomyces cerevisiae. Proceedings
of the National Academy of Sciences 101: 13262-13267.
DP Barondeau, CD Putnam, CJ Kassmann, JA Tainer, ED Getzoff.
2003. Mechanism and energetics of green fluorescent protein chromophore
synthesis revealed by trapped intermediate structures. Proceedings of
the National Academy of Sciences 100: 12111-12116.
RD Kolodner, CD Putnam, and K Myung. 2002. Maintenance of
genome stability in Saccharomyces cerevisiae. Science
297: 552-557.
D Balicki, CD Putnam, PV Scaria, and E Beutler. 2002.
Structure and function correlation in histone H2A peptide-mediated
gene transfer. Proceedings of the National Academy of Sciences
99: 7467-7471.
KP Hopfner, CD Putnam, and JA Tainer. 2002. DNA double-strand
break repair from head to tail. Current Opinions in Structural
Biology 12: 115-122.
CD Putnam, CB Clancy, H Tsuruta, S Gonzalez, JG Wetmur, and
JA Tainer. 2001. Structure and mechanism of the RuvB Holliday junction
branch migration motor. Journal of Molecular Biology 311:
297-310.
DJ Hosfield, CD Mol, SS Parikh, CD Putnam, and JA Tainer. 2001.
DNA damage recognition and repair pathway coordination revealed
by the structural biochemistry of DNA repair enzymes. Progress in Nucleic Acid
Research and Molecular Biology 68: 315-347.
CD Putnam, AS Arvai, Y Bourne, and JA Tainer. 2000. Active and
inhibited human catalase structures: ligand and NADPH binding and
catalytic mechanism. Journal of Molecular Biology 296:
295-309.
SS Parikh, CD Putnam, and JA Tainer. 2000. Lessons learned
from structural results on uracil-DNA
glycosylase. Mutation Research 460: 183-199.
CD Putnam and JA Tainer. 2000. The food of sweet and
bitter fancy. Nature Structural Biology 7: 17-18.
S Han, JA Craig, CD Putnam, NB Carozzi, and JA Tainer. 1999.
Evolution and mechanism from structures of an ADP-ribosylating toxin and NAD
complex. Nature Structural Biology 6: 932-936.
CD Putnam, MJN Shroyer, AJ Lundquist, CD Mol,
AS Arvai, DW Mosbaugh, and JA Tainer. 1999.
Protein mimicry of DNA from crystal structures of the uracil-DNA
glycosylase inhibitor protein and its complex with Escherichia coli
uracil-DNA glycosylase.
Journal of Molecular Biology 287: 331-346.
MJN Shroyer, SE Bennett, CD Putnam, JA Tainer, and DW Mosbaugh. 1999.
Mutation of an active site residue in Escherichia coli uracil-DNA
glycosylase: Effect on DNA-binding, uracil inhibition and catalysis.
Biochemistry 38: 4834-4845.
CD Mol, SS Parikh, CD Putnam, TP Lo, and JA Tainer. 1999.
DNA repair mechanisms for the recognition and removal of damaged DNA bases.
Annual Reviews of Biophysics and Biomolecular Structure 28: 101-128.
SK Wilcox, CD Putnam, M Sastry, J Blankenship, WJ Chazin,
and DB Goodin. 1998.
Rational design of a functional metalloenzyme: introduction of a site for
manganese binding and oxidation into a heme peroxidase.
Biochemisty 37: 16853-62.
MJ Donlin, RF Frey, CD Putnam, J Proctor, and JK Bashkin. 1998.
Analysis of iron in ferritin, the iron-storage protein: A general chemistry
experiment.
Journal of Chemical Education 75: 437-41.
CS Pikaard, GP Copenhaver, CD Putnam, ML Denton. 1994.
UBF-nucleic acid interactions and the molecular evolution of ribosomal
gene enhancers.
Journal of Cellular Biochemistry Suppl. 18C: 69.
CD Putnam, GP Copenhaver, ML Denton, and CS Pikaard. 1994.
The RNA polymerase I transactivator upstream binding factor requires its
dimerization domain and high-mobility-group (HMG) box 1 to bend, wrap, and
positively supercoil enhancer DNA.
Molecular and Cellular Biology 14: 6476-88.
GP Copenhaver, CD Putnam, ML Denton, and CS Pikaard. 1994.
The RNA polymerase I transcription factor UBF is a sequence-tolerant HMG-box
protein that can recognize structured nucleic acids.
Nucleic Acids Research 22: 2651-7.
CD Putnam and CS Pikaard. 1992.
Cooperative binding of the Xenopus RNA polymerase I transcription
factor xUBF to repetitive ribosomal gene enhancers.
Molecular and Cellular Biology 12: 4970-80.
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CD Putnam, V Pennaneach, and RD Kolodner. June, 2005. Genetic
origins of chromosomal instability in Saccharomyces cerevisiae.
Talk at the 4th Salk Cell Cycle Meeting. La Jolla, California.
CD Putnam and RD Kolodner. January, 2005. The spectrum of
chromosomal instability in Saccharomyces cerevisiae is dictated
by genetic background. Talk at the Gordon Research Conference on
Mammalian DNA Repair. Ventura, California.
CD Putnam and RD Kolodner. January, 2005. The spectrum of
chromosomal instability in Saccharomyces cerevisiae is dictated
by genetic background. Poster at the Gordon Research Conference on
Mammalian DNA Repair. Ventura, California.
CD Putnam, V Pennaneach, and RD Kolodner. October, 2004.
"Saccharomyces cerevisiae as a model system to define the
chromosomal instability phenotype." 2004 Damony Runyon Retreat.
Asilomar, California.
CD Putnam. May, 2004. "Answering Questions with Small Angle
X-ray Scattering in Solution." Invited talk at the SBDR 3rd annual
meeting, Berkeley, California.
CD Putnam, V Pennaneach, and RD Kolodner. May, 2004. "Analysis of
Gross Chromosomal Rearrangements in Yeast: Chromosomal Healing and
Traslocations." Poster at the SBDR 3rd annual meeting, Berkeley,
California.
CD Putnam and JA Tainer. 2001. "Structure and Mechanism of the
DNA Repair Helicase RuvB." Invited talk at the ASM 101st General
Meeting, Orlando, Florida.
CD Putnam, SB Clancy, JG Wetmur, and JA Tainer. June, 2000.
"Structure and Mechanism of the DNA Repair Helicase RuvB."
Poster at the FASEB Summer Research Conference on Nucleic Acid
Enzymes: Structures, Mechanisms, and Novel Applications.
Saxtons River, Vermont.
CD Putnam, CD Mol, AS Arvai, MJN Shroyer, AJ Lundquist,
DW Mosbaugh, and JA Tainer.
March, 2000.
"The Protein Inhibitor of UDG, Ugi, is a Protein Mimic of DNA."
Poster at the Base-Excision Repair 2000 Workshop.
Galveston, Texas.
CD Putnam and JA Tainer.
November, 1999.
"Deciphering the Role of NADPH in the Human Catalase Reaction
Mechanism with High Resolution Structural Data."
Invited speaker at the 2nd Metalloprotein Group Retreat for the
Scripps Research Institute in San Diego, California.
CD Putnam and JA Tainer.
September, 1999.
"A Molecular Ruler in Hydrogen Peroxide Selection by Human Catalase."
Talk at the Scripps Research Institute Graduate Student Retreat
in San Diego, California.
CD Putnam, MJN Shroyer, AJ Lundquist, CD Mol, AS Arvai, DW Mosbaugh, and JA Tainer.
March, 1999.
"The Mechanism-Based Inhibitor Protein of Uracil-DNA Glycosylase, Ugi,
is a Protein Mimic of DNA."
Poster presented at the 14th West Coast Crystallography Workshop at
Asilomar Conference Center, Pacific Grove, California.
CD Putnam and JA Tainer.
October, 1998.
"Particle Positioning and Phase Extension using Low-Resolution
Diffraction Data Collection in Crystallographic Studies on a DNA
Helicase."
Invited speaker at the Workshop on Small-Angle X-ray Scattering
and Diffraction in Biology at the Stanford Synchrotron Radiation
Laboratory, Stanford Linear Accelerator Center, Stanford University,
Palo Alto, California.
CD Putnam, CD Mol, AS Arvai, DW Mosbaugh, and JA Tainer.
September, 1998.
"The Basis of Protein Mimicy of DNA: Structures of Ugi and
the E. coli Uracil-DNA Glycosylase:Ugi Complex."
Poster presented at the Scripps Research Institute Graduate Student
Retreat in San Diego, California.
CD Putnam and DB Goodin.
May, 1995.
"Rational Design of Functional Metalloenzymes: Engineering
Manganese Peroxidase Activity on the Cytochrome c Peroxidase."
Invited speaker at the 1st Metalloprotein Group Retreat for the
Scripps Research Institute in Alpine, California.
CS Pikaard, GP Copenhaver, CD Putnam, and ML Denton.
February, 1994.
"UBF-Nucleic Acid
Interactions and the Molecular Evolution of Ribosomal Gene Enhancers."
Poster presented at the Keystone Symposium on Molecular and Cellular
Biochemistry "Basic Aspects of Transcription" at Keystone, Colorado.
CD Putnam, GP Copenhaver, and CS Pikaard.
September, 1991.
"Minimum DNA sequence requirements for xUBF binding
in vitro."
Poster presentation at the Cold Spring Harbor Laboratory
meeting on the Synthesis of Ribosomes.
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