Nathan I. Nicely, PhD

Assistant Professor in Medicine
Member of the Duke Human Vaccine Institute
Campus mail 308 Research Drive, LSRC Room A06, Durham, NC 27708
Phone (919) 681-3917
Email address nathan.nicely@duke.edu

Nathan Nicely, Ph.D., is an Assistant Professor of Medicine with the Duke Human Vaccine Institute and Director of the Duke University X-ray Crystallography shared resource. His major research interests lie in the structural biology of anti-HIV antibodies and HIV virion coat proteins. Dr. Nicely received his Ph.D. in Structural and Molecular Biochemistry from NC State University in 2005 with Dr. Carla Mattos. He then completed a postdoctoral fellowship with Dr. Al Claiborne in the Center for Structural Biology at Wake Forest University. After a brief stint working in computational biology and bioinformatics with the Renaissance Computing Institute at the University of North Carolina, Dr. Nicely came to the Duke Human Vaccine Institute in early 2008 to complete the construction of the X-ray crystallography facility and to undertake the DHVI's structural biology program.

The X-ray Crystallography Shared Resource aims to provide the full range of services necessary to determine macromolecular structures. The facility was constructed in mid-2008 and officially opened its doors to the structural biology community in late 2009. The overall goal of the crystallography lab is to centralize all the necessary instrumentation as well as experienced expertise requisite to produce validated, high impact crystal structures for the Duke Human Vaccine Institute’s structural aims as well as any other investigator on campus with similar goals.  The core lab offers everything from protein production to structure determination and publishing. The Shared Resource supports entry points for labs that are interested in expanding their research projects to include structural biology aims from basic methodological advice to full collaboration. A full description of the lab and its publications can be found at its website. Dr. Nicely enjoys engaging in the day-to-day operations of the crystallography facility, including user training and assistance as well as maintenance of the hardware and software that support the science.

Education and Training

  • Ph.D., North Carolina State University, 2005
  • B.S., North Carolina State University, 2000

Publications

Nguyen, QN, Martinez, DR, Himes, JE, Whitney Edwards, R, Han, Q, Kumar, A, Mangan, R, Nicely, NI, Xie, G, Vandergrift, N, Shen, X, Pollara, J, and Permar, SR. "Predominant envelope variable loop 2-specific and gp120-specific antibody-dependent cellular cytotoxicity antibody responses in acutely SIV-infected African green monkeys." Retrovirology 15, no. 1 (March 9, 2018): 24-.

PMID
29523166
Full Text

Williams, WB, Zhang, J, Jiang, C, Nicely, NI, Fera, D, Luo, K, Moody, MA, Liao, H-X, Alam, SM, Kepler, TB, Ramesh, A, Wiehe, K, Holland, JA, Bradley, T, Vandergrift, N, Saunders, KO, Parks, R, Foulger, A, Xia, S-M, Bonsignori, M, Montefiori, DC, Louder, M, Eaton, A, Santra, S, Scearce, R, Sutherland, L, Newman, A, Bouton-Verville, H, Bowman, C, Bomze, H, Gao, F, Marshall, DJ, Whitesides, JF, Nie, X, Kelsoe, G, Reed, SG, Fox, CB, Clary, K, Koutsoukos, M, Franco, D, Mascola, JR, and Harrison, SC et al. "Initiation of HIV neutralizing B cell lineages with sequential envelope immunizations." Nature communications 8, no. 1 (November 23, 2017): 1732-.

PMID
29170366
Full Text

Shwab, EK, Juvvadi, PR, Waitt, G, Soderblom, EJ, Moseley, MA, Nicely, NI, and Steinbach, WJ. "Phosphorylation of Aspergillus fumigatus PkaR impacts growth and cell wall integrity through novel mechanisms." FEBS letters 591, no. 22 (November 2017): 3730-3744. (Letter)

PMID
29067690
Full Text

Go, EP, Ding, H, Zhang, S, Ringe, RP, Nicely, N, Hua, D, Steinbock, RT, Golabek, M, Alin, J, Alam, SM, Cupo, A, Haynes, BF, Kappes, JC, Moore, JP, Sodroski, JG, and Desaire, H. "Glycosylation Benchmark Profile for HIV-1 Envelope Glycoprotein Production Based on Eleven Env Trimers." Journal of virology 91, no. 9 (May 2017).

PMID
28202756
Full Text

Martinez, DR, Vandergrift, N, Douglas, AO, McGuire, E, Bainbridge, J, Nicely, NI, Montefiori, DC, Tomaras, GD, Fouda, GG, and Permar, SR. "Maternal Binding and Neutralizing IgG Responses Targeting the C-Terminal Region of the V3 Loop Are Predictive of Reduced Peripartum HIV-1 Transmission Risk." Journal of virology 91, no. 9 (May 2017).

PMID
28202762
Full Text

Shwab, EK, Juvvadi, PR, Waitt, G, Soderblom, EJ, Moseley, MA, Nicely, NI, Asfaw, YG, and Steinbach, WJ. "A Novel Phosphoregulatory Switch Controls the Activity and Function of the Major Catalytic Subunit of Protein Kinase A in Aspergillus fumigatus." mBio 8, no. 1 (February 7, 2017).

PMID
28174315
Full Text

Wiehe, K, Nicely, NI, Lockwood, B, Kuraoka, M, Anasti, K, Arora, S, Bowman, CM, Stolarchuk, C, Parks, R, Lloyd, KE, Xia, S-M, Duffy, R, Shen, X, Kyratsous, CA, Macdonald, LE, Murphy, AJ, Scearce, RM, Moody, MA, Alam, SM, Verkoczy, L, Tomaras, GD, Kelsoe, G, and Haynes, BF. "Immunodominance of Antibody Recognition of the HIV Envelope V2 Region in Ig-Humanized Mice." Journal of immunology (Baltimore, Md. : 1950) 198, no. 3 (February 2017): 1047-1055.

PMID
28011932
Full Text

Saunders, KO, Nicely, NI, Wiehe, K, Bonsignori, M, Meyerhoff, RR, Parks, R, Walkowicz, WE, Aussedat, B, Wu, NR, Cai, F, Vohra, Y, Park, PK, Eaton, A, Go, EP, Sutherland, LL, Scearce, RM, Barouch, DH, Zhang, R, Von Holle, T, Overman, RG, Anasti, K, Sanders, RW, Moody, MA, Kepler, TB, Korber, B, Desaire, H, Santra, S, Letvin, NL, Nabel, GJ, Montefiori, DC, Tomaras, GD, Liao, H-X, Alam, SM, Danishefsky, SJ, and Haynes, BF. "Vaccine Elicitation of High Mannose-Dependent Neutralizing Antibodies against the V3-Glycan Broadly Neutralizing Epitope in Nonhuman Primates." Cell reports 18, no. 9 (February 2017): 2175-2188.

PMID
28249163
Full Text

Zhang, R, Verkoczy, L, Wiehe, K, Munir Alam, S, Nicely, NI, Santra, S, Bradley, T, Pemble, CW, Zhang, J, Gao, F, Montefiori, DC, Bouton-Verville, H, Kelsoe, G, Larimore, K, Greenberg, PD, Parks, R, Foulger, A, Peel, JN, Luo, K, Lu, X, Trama, AM, Vandergrift, N, Tomaras, GD, Kepler, TB, Moody, MA, Liao, H-X, and Haynes, BF. "Initiation of immune tolerance-controlled HIV gp41 neutralizing B cell lineages." Science translational medicine 8, no. 336 (April 2016): 336ra62-.

PMID
27122615
Full Text

Santra, S, Tomaras, GD, Warrier, R, Nicely, NI, Liao, H-X, Pollara, J, Liu, P, Alam, SM, Zhang, R, Cocklin, SL, Shen, X, Duffy, R, Xia, S-M, Schutte, RJ, Pemble Iv, CW, Dennison, SM, Li, H, Chao, A, Vidnovic, K, Evans, A, Klein, K, Kumar, A, Robinson, J, Landucci, G, Forthal, DN, Montefiori, DC, Kaewkungwal, J, Nitayaphan, S, Pitisuttithum, P, Rerks-Ngarm, S, Robb, ML, Michael, NL, Kim, JH, Soderberg, KA, Giorgi, EE, Blair, L, Korber, BT, Moog, C, Shattock, RJ, Letvin, NL, and Schmitz, JE et al. "Human Non-neutralizing HIV-1 Envelope Monoclonal Antibodies Limit the Number of Founder Viruses during SHIV Mucosal Infection in Rhesus Macaques." PLoS pathogens 11, no. 8 (August 3, 2015): e1005042-.

PMID
26237403
Full Text

Pages