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Fundamental and Computational Sciences Directorate

Staff information

John Cort

Deputy Division Director
Scientist, TL
Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-98
Richland, WA 99352

Research Interests

  • biomolecular NMR spectroscopy
  • structure-based functional genomics

Education and Credentials

  • B.A. Williams College, 1991
  • Ph.D. University of Washington, 1997

PNNL Publications

2013

  • Ansong C, S Wu, D Meng, X Liu, HM Brewer, BLD Kaiser, ES Nakayasu, JR Cort, PA Pevzner, RD Smith, F Heffron, JN Adkins, and L Pasa-Tolic. 2013. "Top-down proteomics reveals a unique protein S-thiolation switch in Salmonella Typimurium in response to infection-like conditions." Proceedings of the National Academy of Sciences of the United States of America 110(25):10153-10158.  doi:10.1073/pnas.1221210110
  • Fu N, D Su, JR Cort, B Chen, Y Xiong, W Qian, A Konopka, DJ Bigelow, and TC Squier. 2013. "Synthesis and Application of an Environmentally Insensitive Cy3-Based Arsenical Fluorescent Probe to Identify Adaptive Microbial Responses Involving Proximal Dithiol Oxidation." Journal of the American Chemical Society 135(9):3567-3575.  doi:10.1021/ja3117284
  • Isern NG, J Xue, JV Rao, JR Cort, and BK Ahring. 2013. "Novel monosaccharide fermentation products in Caldicellulosiruptor saccharolyticus identified using NMR spectroscopy." Biotechnology for Biofuels 6(4):Article No. 47.  doi:10.1186/1754-6834-6-47
  • Merkley ED, ES Baker, KL Crowell, DJ Orton, T Taverner, C Ansong, YM Ibrahim, MC Burnet, JR Cort, GA Anderson, RD Smith, and JN Adkins. 2013. "Mixed-Isotope Labeling with LC-IMS-MS for Characterization of Protein-Protein Interactions by Chemical Cross-Linking ." Journal of the American Society for Mass Spectrometry 24(3):444-449.  doi:10.1007/s13361-012-0565-x
  • Merkley ED, JR Cort, and JN Adkins. 2013. "Cross-Linking and Mass Spectrometry Methodologies to Facilitate Structural Biology: Finding a Path through the Maze." Journal of Structural and Functional Genomics 14(3):77-90.  doi:10.1007/s10969-013-9160-z
  • Metaxas AE, and JR Cort. 2013. "Counterion influence on chemical shifts in strychnine salts." Magnetic Resonance in Chemistry 51(5):292-298.  doi:10.1002/mrc.3945
  • Michalska K, RN Brown, H Li, R Jedrzejczak, G Niemann, F Heffron, JR Cort, JN Adkins, G Babnigg, and A Joachimiak. 2013. "New sub-family of lysozyme-like proteins shows no catalytic activity: crystallographic and biochemical study of STM3605 protein from Salmonella Typhimurium." Journal of Structural and Functional Genomics 14(1):1-10.  doi:10.1007/s10969-013-9151-0
  • Venceslau SS, JR Cort, ES Baker, RK Chu, EW Robinson, C Dahl, LM Saraiva, and IA Pereira. 2013. "Redox states of Desulfovibrio vulgaris DsrC, a key protein in dissimilatory sulfite reduction." Biochemical and Biophysical Research Communications 441(4):731-736.  doi:10.1016/j.bbrc.2013.10.116

2012

  • Cort JR, PJ Alperin, and HM Cho. 2012. "Measurement and analysis of diastereomer ratios for forensic characterization of brodifacoum." Forensic Science International 214(1-3):178-181.  doi:10.1016/j.forsciint.2011.08.003
  • Snyder DA, JM Aramini, B Yu, Y Huang, R Xiao, JR Cort, R Shastry, LC Ma, J Liu, B Rost, T Acton, MA Kennedy, and G Montelione. 2012. "Solution NMR structure of the ribosomal protein RP-L35Ae from Pyrococcus furiosus." Proteins. Structure, Function, and Bioinformatics 80(7):1901-1906. 
  • Yang Y, TA Ramelot, JR Cort, M Garcia, A Yee, CH Arrowsmith, and MA Kennedy. 2012. "Solution NMR Structure of Hypothetical Protein CV_2116 Encoded by a Viral Prophage Element in Chromobacterium violaceum." International Journal of Molecular Sciences 13(6):7354-7364.  doi:10.3390/ijms13067354
  • Yang Y, TA Ramelot, JR Cort, M Garcia, A Yee, CH Arrowsmith, and MA Kennedy. 2012. "Solution NMR Structure of Hypothetical Protein CV_2116 Encoded by a Viral Prophage Element in Chromobacterium violaceum." International Journal of Molecular Sciences 13(6):7354-7364.  doi:10.3390/ijms13067354

2011

  • Cort JR, M Swenson, and TS Magnuson. 2011. "1H, 13C, and 15N backbone, side-chain, and heme chemical shift assignments for oxidized and reduced forms of the monoheme c-type cytochrome ApcA isolated from the acidophilic metal-reducing bacterium Acidiphilium cryptum." Biomolecular NMR Assignments 5(1):89-92.  doi:10.1007/s12104-010-9274-1
  • Barb AW, JR Cort, J Seetharaman, S Lew, HW Lee, T Acton, R Xiao, MA Kennedy, L Tong, G Montelione, and JH Prestegard. 2011. "Structures of Domains I and IV from YbbR are representative of a widely distributed protein family." Protein Science 20(2):396-405.  doi:10.1002/pro.571
  • Yin C, JM Aramini, LC Ma, JR Cort, GVT Swapna, RM Krug, and G Montelione. 2011. "Backbone and Ile-d1, Leu, Val Methyl 1H, 13C and 15N NMR chemical shift assignments for human interferon-stimulated gene 15 protein." Biomolecular NMR Assignments 5(2):215-219.  doi:10.1007/s12104-011-9303-8

2010

  • Tang Z, H Wu, JR Cort, GW Buchko, Y Zhang, Y Shao, IA Aksay, J Liu, and Y Lin. 2010. "Constraint of DNA on Functionalized Graphene Improves Its Biostability and Specificity." Small 6(11):1205-1209.  doi:10.1002/smll.201000024
  • Aramini JM, P Rossi, JR Cort, LC Ma, R Xiao, T Acton, and G Montelione. 2010. "Solution NMR structure of the plasmid-encoded fimbriae regulatory protein PefI from Salmonella enterica serovar Typhimurium." Proteins. Structure, Function, and Bioinformatics 79(1):335-339.  doi:10.1002/prot.22869
  • Grimm F, JR Cort, and C Dahl. 2010. "DsrR, a Novel IscA-like Protein Lacking Iron- and Fe-S-Binding Functions, Involved in the Regulation of Sulfur Oxidation in Allochromatium Vinosum." Journal of Bacteriology 192(6):1652-1661.  doi:10.1128/JB.01269-09
  • Yang Y, TA Ramelot, JR Cort, D Wang, C Ciccosanti, K Hamilton, R Nair, B Rost, T Acton, R Xiao, JK Everett, G Montelione, and MA Kennedy. 2010. "Solution NMR Structure of Photosystem II Reaction Center Protein Psb28 from Synechocystin sp. Strain PCC 6803." Proteins. Structure, Function, and Bioinformatics 79(1):340-344.  doi:10.1002/prot.22876
  • Yang Y, TA Ramelot, RM McCarrick, S Ni, EA Feldmann, JR Cort, H Wang, C Ciccosanti, M Jiang, H Janjua, T Acton, R Xiao, JK Everett, G Montelione, and MA Kennedy. 2010. "Combining NMR, PRE, and EPR Methods For Homodimer Protein Structure Determination." Journal of the American Chemical Society 132(34):11910-11913.  doi:10.1021/ja105080h

2009

  • Cort JR, and HM Cho. 2009. "1H and 13C NMR Chemical Shift Assignments and Conformational Analysis for the Two Diastereomers of the Vitamin K Epoxide Reductase Inhibitor Brodifacoum." Magnetic Resonance in Chemistry 47(10):897-901.  doi:10.1002/mrc.2475
  • Bertonati C, M Punta, M Fischer, G Yachdav, F Forouhar, W Zhou, AP Kuzin, J Seetharaman, M Abashidze, TA Ramelot, MA Kennedy, JR Cort, A Belachew, JF Hunt, L Tong, G Montelione, and B Rost. 2009. "Structural genomics reveals EVE as a new ASCH/PUA-related domain." Proteins. Structure, Function, and Bioinformatics 75(3):760-773. 
  • Mercier KA, JR Cort, MA Kennedy, EE Lockert, S Ni, MD Shortridge, and R Powers. 2009. "Structure and Function of Pseudomonas Aeruginosa Protein PA1324 (21-170)." Protein Science 18(3):606-618. 

2008

  • Cort JR, TA Ramelot, D Murray, T Acton, LC Ma, R Xiao, G Montelione, and MA Kennedy. 2008. "Structure of an Acetyl-CoA Binding Protein from Staphylococcus aureus Representing a Novel Subfamily of GCN5-related N-Acetyltransferase-like Proteins." Journal of Structural and Functional Genomics 9(1-4):7-20.  doi:10.1007/s10969-008-9041-z
  • Cort JR, U Selan, A Schulte, F Grimm, MA Kennedy, and C Dahl. 2008. "Allochromatium vinosum DsrC: Solution-State NMR Structure, Redox Properties and Interaction with DsrEFH, a Protein Essential for Purple Sulfur Bacterial Sulfur Oxidation ." Journal of Molecular Biology 382:692-707.  doi:10.1016/j.jmb.2008.07.022
  • Buchko GW, JG Bekhazi, JR Cort, NB Valentine, ML Snead, and WJ Shaw. 2008. "1H, 13C, and 15N resonance assignments of murine amelogenin, an enamel biomineralization protein. ." Biomolecular NMR Assignments 2(1):89-91. 
  • Wu B, A Yee, Y Huang, TA Ramelot, JR Cort, A Semesi, JW Jung, W Lee, MA Kennedy, G Montelione, and CH Arrowsmith. 2008. "The solution structure of ribosomal protein S17E from Methanobacterium thermoautotrophicum: a structural homolog of the FF domain." Protein Science 17(3):583-588. 

2007

  • Ramelot TA, A Yee, JR Cort, A Semesi, CH Arrowsmith, and MA Kennedy. 2007. "NMR structure and binding studies confirm that PA4608 from Pseudomonas aeruginosa is a PilZ domain and a c-di-GMP binding protein ." Proteins. Structure, Function, and Bioinformatics 66(2):266-271.  doi:10.1002/prot.21199
  • Aramini JM, Y Huang, GVT Swapna, JR Cort, PK Rajan, R Xiao, R Shastry, T Acton, J Liu, B Rost, MA Kennedy, and G Montelione. 2007. "The solution NMR structure of Escherichia coli ytfP expands the structural coverage of the UPF0131 protein domain family." Proteins. Structure, Function, and Bioinformatics 68:789-795.  doi:10.1002/prot.21450

2005

  • Aramini JM, GVT Swapna, Y Huang, PK Rajan, R Xiao, R Shastry, T Acton, JR Cort, MA Kennedy, and G Montelione. 2005. "1H, 13C, and 15N resonance assignments for Escherichia coli ytfP, a member of the broadly conserved UPF0131 protein domain family." Journal of Biomolecular NMR 33(3):197. 
  • Powers R, N Mirkovic, S Goldsmith-Fischman, T Acton, Y Chiang, Y Huang, LC Ma, PK Rajan, JR Cort, MA Kennedy, J Liu, B Rost, B Honig, D Murray, and G Montelione. 2005. "Solution Structure of Archaeoglobus fulgidis Peptidyl-tRNA Hydrolase(Pth2) Provides Evidence for an Extensive Conserved Family of Pth2 Enzymes in Archaea, Bacteria and Eukaryotes." Protein Science 14(11):2849-2861. 
  • Savchenko A, N Krogan, JR Cort, E Evdokimova, JM Lew, A Yee, L Sanchez-Pulido, M Andrade, A Bochkarev, JD Watson, MA Kennedy, J Greenblatt, T Hughes, CH Arrowsmith, JM Rommens, and AM Edwards. 2005. "The Shwachman-Bodian-Diamond Syndrome Protein Family Is Involved in RNA Metabolism." Journal of Biological Chemistry 280(19):19213-19220.  doi:10.1074/jbc.M414421200

2004

  • Ramelot TA, JR Cort, S Goldsmith-Fischman, GJ Kornhaber, R Xiao, R Shastry, T Acton, B Honig, G Montelione, and MA Kennedy. 2004. "Solution NMR Structure of the Iron-Sulfur Cluster Assembly Protein U (IscU) with Zinc Bound at the Active Site ." Journal of Molecular Biology 344(2):567-583. 
  • Powers R, T Acton, Y Chiang, PK Rajan, JR Cort, MA Kennedy, J Liu, LC Ma, B Rost, and G Montelione. 2004. "Letter to the Editor: H-1, C-13 and N-15 Assignments for the Archaeglobus fulgidis Protein AF2095." Journal of Biomolecular NMR 30(1):107-108. 
  • Powers R, T Acton, Y Chiang, PK Rajan, JR Cort, MA Kennedy, J Liu, L Ma, B Rost, and G Montelione. 2004. "Letter to the Editor: H-1, C-13 and N-15 Assignments for the Archaeglobus Fulgidis Protein AF2095." Journal of Biomolecular NMR 30(1):107-108. 

2003

  • Ramelot TA, JR Cort, A Yee, A Semsesi, AM Edwards, CH Arrowsmith, and MA Kennedy. 2003. "Solution Structure of the Yeast Ubiquitin-Like Modifier Protein Hub1." Journal of Structural and Functional Genomics 4(1):25-30. 
  • Ramelot TA, S Ni, S Goldsmith-Fischman, JR Cort, B Honig, and MA Kennedy. 2003. "Solution Structure of Vibrio Cholerae Protein VC0424: A Variation of the Ferredoxin-like Fold." Protein Science 12(7):1556-1561. 
  • Aramini JM, Y Huang, JR Cort, S Goldsmith-Fischman, R Xiao, L Shih, CK Ho, J Liu, B Rost, B Honig, MA Kennedy, T Acton, and G Montelione. 2003. "Solution NMR Structure of the 30S Ribosomal Protein S28E From Pyrococcus Horikoshii." Protein Science 12(12):2823-2830. 
  • Pineda-Lucena A, J Liao, JR Cort, A Yee, MA Kennedy, AM Edwards, and CH Arrowsmith. 2003. "A novel member of the split betaalphabeta fold: Solution structure of the hypothetical protein YML108W from Saccharomyces cerevisiae ." Protein Science 12(5):1136-1140. 
  • Wu B, A Yee, A Pineda-Lucena, A Semesi, TA Ramelot, JR Cort, JW Jung, AM Edwards, W Lee, MA Kennedy, and CH Arrowsmith. 2003. "Solution Structure of Ribosomal Protein S28E From Methanobacterium Thermoautotrophicum." Protein Science 12(12):2831-2837. 
  • Zheng D, JR Cort, Y Chiang, T Acton, MA Kennedy, and G Montelione. 2003. "Letter to the Editor: 1H, 13C and 15N Resonance Assignments for Methionine Sulfoxide Reductase B from Bacillus Subtilis ." Journal of Biomolecular NMR 27(2):183-184. 

2002

  • Cort JR, Y Chiang, D Zheng, MA Kennedy, and G Montelione. 2002. "NMR Structure of Conserved Eukaryotic Protein ZK652.3 from C. elegans: a Ubiquitin-like Fold." Proteins. Structure, Function, and Genetics 48(4):733-736. 
  • Ramelot TA, JR Cort, A Yee, A Semesi, AM Edwards, CH Arrowsmith, and MA Kennedy. 2002. "NMR Structure of the Escherichia Coli Protein YacG; A Novel Sequence Motif in the Zinc-Finger Family of Proteins." Proteins. Structure, Function, and Genetics 49(2):289-293. 
  • Ramelot TA, JR Cort, A Yee, F Liu, MB Goshe, AM Edwards, RD Smith, CH Arrowsmith, TE Dever, and MA Kennedy. 2002. "Myxoma Virus Immunomodulatory Protein M156R is a Structural Mimic of Eukaryotic Translation Initiation Factor eIF2[alpha]." Journal of Molecular Biology 322(5):943-954. 
  • Pineda-Lucena A, G Yi, X Chang, JR Cort, MA Kennedy, AM Edwards, and CH Arrowsmith. 2002. "Letter to the Editor: Solution Structure of the Hypothetical Protein MTH0637 from Methanobacterium Thermoautotrophicum." Journal of Biomolecular NMR 22(3):291-294. 
  • Pineda-Lucena A, J Liao, B Wu, A Yee, JR Cort, MA Kennedy, AM Edwards, and CH Arrowsmith. 2002. "NMR Structure of the hypothetical protein encoded by the YjbJ gene from Escherichia coli." Proteins. Structure, Function, and Genetics 47(4):572-574. 
  • Ramelot TA, JR Cort, A Yee, F Liu, MB Goshe, AM Edwards, RD Smith, CH Arrowsmith, TE Dever, and MA Kennedy. 2002. "Myxoma Virus Immunomodulatory Protein M156R is a Structural Mimic of Eukaryotic Translation Initiation Factor eIF2 alpha." Journal of Molecular Biology 322(5):943-954. 
  • Yee A, X Chang, A Pineda-Lucena, B Wu, A Semsesi, B Le , TA Ramelot, GM Lee, S Bhattacharyya, P Gutierrez, A Denisov, CH Lee, JR Cort, G Kozlov, J Liao, G Finak, L Chen, D Wishart, W Lee, LP Mclntosh, K Gehring, MA Kennedy, AM Edwards, and CH Arrowsmith. 2002. "An NMR Approach to Structural Proteomics." Proceedings of the National Academy of Sciences of the United States of America 99(4):1825-1830. 

2001

  • Cort JR, A Yee, AM Edwards, CH Arrowsmith, and MA Kennedy. 2001. "NMR Structure Determination and Structure-Based Functional Characterization of a Conserved, Hypothetical Protein MTH1175 from Methanobacterium thermoautotrophicum." Journal of Structural and Functional Genomics 1:15-25. 
  • Cort JR, SVS Mariappan, CY Kim, MS Park, TS Peat, GS Waldo, TC Terwilliger, and MA Kennedy. 2001. "Solution Structure of Pyrobaculum aerophilum DsrC, an Archaeal Homologue of the Gamma Subunit of Dissimilatory Sulfite Reductase." European Journal of Biochemistry / FEBS 268(22):5842-50. 

2000

  • Cort JR, A Yee, AM Edwards, CH Arrowsmith, and MA Kennedy. 2000. "Structure-Based Functional Classification of Hypothetical Protein MTH538 from Methanobacterium thermoautotrophicum." Journal of Molecular Biology 302(1):189-203. 
  • Christendat D, A Yee, A Dharamsi, Y Kluger, A Savchenko, JR Cort, V Booth, CD Mackereth, V Saridakis, I Ekiel, G Kozlov, KL Maxwell, N Wu, LP Mcintosh, K Gehring, MA Kennedy, AR Davidson, EF Pai, M Gerstein, AM Edwards, and CH Arrowsmith. 2000. "Structural Proteomics of an Archaeon." Nature Structural Biology 7(10):903-909. 

1999

  • Cort JR, EV Koonin, PA Bash, and MA Kennedy. 1999. "A Phylogenetic Approach to Target Selection for Structural Genomics: Solution Structure of YciH ." Nucleic Acids Research 27(20):4018-4027. 

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