Funding
Development and Application of the AMOEBA Polarizable Force Field. National Science Foundation. Aug 2012 - Jul 2016. Award Number: 1152522
New Bioanalytical Methods Based on Next Generation Sequencing. National Institutes of Health. Oct 2014 - Sep 2019. Award Number: 5R01GM109974-02 (Co-Investigator)
Cohesin Dynamics And Transcriptional Enhancer Function. National Institute Of General Medical Sciences. Sep 2015 - Jul 2019. Award Number: 1R01GM108714-01A1 (Co- Investigator)
RNA-dependent RNA Polymerase. National Institute of Allergy and Infectious Diseases. Jul 2015 - Jun 2020. Award Number: R01AI045818-16A1 (Subcontract)
Structural studies of the HBV ribonuclease H. National Institutes of Health. Mar 2016 - Feb 2018. Award Number: 1R03AI123689-01 (Co-Investigator)
Publications
Why ser and not thr brokers catalysis in the trypsin fold. Abstract Pubmed
Structural Dynamics as a Contributor to Error-prone Replication by an RNA-dependent RNA Polymerase. Abstract Pubmed
Sequence selectivity of macrolide-induced translational attenuation. Abstract Pubmed
Crystal structure of prothrombin reveals conformational flexibility and mechanism of activation. Abstract Pubmed
Cohesin and polycomb proteins functionally interact to control transcription at silenced and active genes. Abstract Pubmed
Genome-wide control of RNA polymerase II activity by cohesin. Abstract Pubmed
Conformational selection in trypsin-like proteases. Abstract Pubmed
Genome-wide networks of amino acid covariances are common among viruses. Abstract Pubmed
Allostery in trypsin-like proteases suggests new therapeutic strategies. Abstract Pubmed
OpenCL: A Parallel Programming Standard for Heterogeneous Computing Systems. Abstract Pubmed
APBSmem: a graphical interface for electrostatic calculations at the membrane. Abstract Pubmed
Crystal structure of poliovirus 3CD protein: virally encoded protease and precursor to the RNA-dependent RNA polymerase. Abstract Pubmed
Poliovirus RNA-dependent RNA polymerase (3Dpol): pre-steady-state kinetic analysis of ribonucleotide incorporation in the presence of Mn2+. Abstract Pubmed
Poliovirus RNA-dependent RNA polymerase (3Dpol): kinetic, thermodynamic, and structural analysis of ribonucleotide selection. Abstract Pubmed
Manganese-dependent polioviruses caused by mutations within the viral polymerase. Abstract Pubmed
Structure-function relationships of the RNA-dependent RNA polymerase from poliovirus (3Dpol). A surface of the primary oligomerization domain functions in capsid precursor processing and VPg uridylylation. Abstract Pubmed
Poliovirus RNA-dependent RNA polymerase (3Dpol): structural, biochemical, and biological analysis of conserved structural motifs A and B. Abstract Pubmed
Production of "authentic" poliovirus RNA-dependent RNA polymerase (3D(pol)) by ubiquitin-protease-mediated cleavage in Escherichia coli. Abstract Pubmed
Book Chapters
Hardy, D., Stone, J., Vandivort, K. and Gohara, D. (2011) Fast Molecular Electrostatics Algorithms on GPUs. GPU Computing Gems. Hwu, W.W., ed. Chapter 4.
Korneeva, V., Gohara D.W., and Cameron, C.E. (2003). The RNA-dependent RNA polymerase: Structure, function and mechanism. In Mechanisms of Replication and Transcription of RNA Viruses. Zhang, X., ed. Research Signpost, Kerala, India, pp. 17-36.
Cameron, C.E., Gohara, D.W., and Arnold, J.J. (2002). Poliovirus RNA-dependent RNA polymerase (3Dpol): Structure, function and mechanism. In Molecular Biology of Picornaviruses. Semler, B.L. and Wimmer, E., eds. ASM Press, Washington, D.C., pp. 255- 267.