Protein May Help HIV Vaccine Development. Combining expertise
in biochemistry, immunology and advanced computation, researchers
at Duke University have determined the structure of a key part of
the HIV envelope protein, the gp41 membrane proximal external
region (MPER), which previously eluded detailed structural
description. Duke News, 2014.
Cheng-Yu Chen et al. received the best poster award at the
Fall 2012 Biochemistry Department retreat for their poster titled "NMR
Structure Determination of GrsA Epimerase Domain by Residual Dipolar
Couplings (RDCs), Sparse NOEs and PREs." The poster was co-authored by
Cheng-Yu Chen, Chittaranjan Tripathy, Jianyang Zeng, Pei Zhou and
Bruce R. Donald.
Bruce Donald gave a talk, "Protein Interface Design, Cystic Fibrosis and HIV," in the Duke CBB Computational Biology Seminar on September 17, 2012.
D-Lab Ph.D. student Mark Hallen was awarded a prestigious PhRMA Foundation graduate
fellowship. The goal of the fellowship Program is to promote the use
of informatics in an integrative approach to the understanding of
biological and disease processes. Fellowship awards support career
development for scientists engaged in cutting-edge research in
information technology and experimental validation, thus advancing the
integration of molecular and clinical approaches into problems of
pharmacological concern (December, 2011).
Recent Donald Lab ("D-Lab") Alumni news:
Bohringer (D-Lab Ph.D. 1997), was named the John M. Fluke
Distinguished Chair of Engineering at the University of Washington,
Ivelin Georgiev (D-Lab Ph.D. 2009), became co-head of the
Structural Bioinformatics Section (SBiS) at the Vaccine Research
Center (VRC), National Institute for Allergy and
Infectious Diseases (NIAID), NIH.
Ivelin was also selected to receive a 2011 NIAID
Merit Award. This award recognizes the meritorious achievements and
accomplishments of NIAID employees.
Igor Paprotny (D-Lab Ph.D. 2008), became a research faculty
member at The Berkeley Sensors and Actuator Center (BSAC),
U. C. Berkeley.
Chris Langmead (D-Lab Ph.D. 2004) was promoted to Associate
Professor of Computer Science at Carnegie-Mellon University (CMU).
From 2000-2011 we have had 11 papers accepted in the RECOMB
conference, which we enjoy going to. On most years that's one paper
but in 2011 we had 4 papers accepted for oral presentation and the
proceedings. They are listed here on our
An article on the Donald Lab's work (in collaboration with Amy
Anderson's group) on predicting resistance mutations using protein
design algorithms appeared in PNAS in July 2010, and was
reported by DukeHealth,
EurekAlert, the News
& Observer, and
Congratulations to Ivelin Georgiev and Jeff Martin, recipients of awards announced at the Department of Computer Science Annual Meeting in August 2009. Ivelin was named winner of the Outstanding Ph.D. Dissertation Award and Nomination for the ACM Dissertation Award for his thesis entitled "Novel Algorithms for Computational Protein Design with Applications to Enzyme Redesign and Small-Molecule Inhibitor Design." Jeff was presented the Outstanding Master's Thesis Award for his thesis entitled "Algorithms for Structure Determination of Symmetric Proteins from Nuclear Magnetic Resonance Data."
Protein Power, an article in SeedMagazine.com, in April 2009, recognized the Donald Lab's work in enzyme engineering.
Congratulations to Chittu
and his wife Julie on the birth of their daughter,
Chijul Bruce Tripathy, on August 4, 2008! Chijul's
middle name is named after Chittu's Ph.D. advisor, Bruce Randall Donald, whose
middle name is after Bruce's father's advisor, James G. Randall.
Microrobotic Ballet, A Duke News article and video about the Donald Lab's microscopic robots maneuvering independently on a stage one millimeter square appeared in June 2008.
Nicholas Patrick, a junior majoring in Computer Science and a member of the Donald Lab, is one of three Duke students selected for a Goldwater Scholarship in science, mathematics and engineering for the 2008-09 academic year. More »
While numerous inhibitors of enzymatic activity have been
developed, the development of inhibitors of protein-protein
interactions has only recently come to the forefront as a viable
approach. Allosteric inhibition of such protein-protein interactions
presents a number of advantages, including not having to compete for
binding with the partner protein. However, to date there are very few
examples of such inhibitors. We have developed novel allosteric
small-molecule inhibitors of the binding of RUNX1 to CBFβ, two proteins whose translocations play a
critical role in the development of acute myeloid leukemia and acute
lymphocytic leukemia. The results are reported in the cover
article of Chemistry
& Biology, (Cell Press, 2007) [More »].