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Albert Einstein College of Medicine
Columbia University
City University of New York
Memorial Sloan-Kettering Cancer Center
Mount Sinai School of Medicine
New York University
The Rockefeller University
State University of New York
Wadsworth Center
Weill Medical College of Cornell University
NYSBC

Albert Einstein College of Medicine

2008 Tan D., Rice W.J., Sosa H. Structure of the Kinesin13 Ring Complex. Structure 2008 Nov 12; 16: 1732–39

Kalyanaraman C., Imker H.J., Fedorov A.A., Fedorov E.V., Glasner M.E., Babbitt P.C., Almo S.C., Gerlt J.A., Jacobson M.P. Discovery of a dipeptide epimerase enzymatic function guided by homology modeling and virtual screening. Structure 2008 Nov 12; 16 (11): 1668-77

Chan K.K., Fedorov A.A., Fedorov E.V., Almo S.C., Gerlt J.A. Structural basis for substrate specificity in phosphate binding (beta/alpha)8-barrels: D-allulose 6-phosphate 3-epimerase from Escherichia coli K-12. Biochemistry 2008 Sep 9; 47 (36): 9608-17

Zhong J, Frases S, Wang H, Casadevall A, Stark RE. (2008) Following Fungal Melanin Biosynthesis with Solid-State NMR: Biopolymer Molecular Structures and Possible Connections to Cell-Wall Polysaccharides. Biochemistry; 47: 4701-4710

Chattopadhyay, K., Ramagopal, U.A., Brenowitz, M., Nathenson, S.G. and Almo, S.C. (2008) Evolution of GITRL immune function: murine GITRL exhibits unique structural and biochemical properties within the TNF superfamily. Proc Natl Acad Sci U S A; 105: 635-640

Zhang Q, Atreya HS, Kamen DE, Girvin ME, Szyperski T. (2008) GFT projection NMR based resonance assignment of membrane proteins: application to subunit C of E. coli F(1)F (0) ATP synthase in LPPG micelles. J Biomol NMR; 40: 157-63

Nguyen TT, Brown S, Fedorov AA, Fedorov EV, Babbitt PC, Almo SC, Raushel FM. (2008). At the periphery of the amidohydrolase superfamily: Bh0493 from Bacillus halodurans catalyzes the isomerization of D-galacturonate to D-tagaturonate. Biochemistry, 47: 1194-206

2007 Poget, S.F. and Girvin, M.E. (2007) Solution NMR of membrane proteins in bilayer mimics: Small is beautiful, but sometimes bigger is better. Biochim Biophys Acta; 1768: 3098-3106

Chattopadhyay, K., Ramagopal, U.A., Mukhopadhaya, A., Malashkevich, V.N., Dilorenzo, T.P., Brenowitz, M., Nathenson, S.G. and Almo, S.C. (2007) Assembly and structural properties of glucocorticoid-induced TNF receptor ligand: Implications for function. Proceedings of the National Academy of Sciences of the United States of America; 104: 19452-19457

Rakus, J.F., Fedorov, A.A., Fedorov, E.V., Glasner, M.E., Vick, J.E., Babbitt, P.C., Almo, S.C. and Gerlt, J.A. (2007) Evolution of enzymatic activities in the enolase superfamily: D-Mannonate dehydratase from Novosphingobium aromaticivorans. Biochemistry; 46: 12896-12908

Hermann, J.C., Marti-Arbona, R., Fedorov, A.A., Fedorov, E., Almo, S.C., Shoichet, B.K. and Raushel, F.M. (2007) Structure-based activity prediction for an enzyme of unknown function. Nature; 448: 775-779

Song, L., Kalyanaraman, C., Fedorov, A.A., Fedorov, E.V., Glasner, M.E., Brown, S., Imker, H.J., Babbitt, P.C., Almo, S.C., Jacobson, M.P. and Gerlt, J.A. (2007) Prediction and assignment of function for a divergent N-succinyl amino acid racemase. Nature chemical biology; 3: 486-491

Girvin, M. Faculty of 1000 Evaluation for Douglas SM, et al. DNA-nanotube-induced alignment of membrane proteins for NMR structure determination. Proc Natl Acad Sci U S A; 104: 6644-8

Poget SF, Cahill SM, Girvin ME Isotropic Bicelles Stabilize the Functional Form of a Small Multidrug-Resistance Pump for NMR Structural Studies. J Am Chem Soc; 129: 2432-2433

Kamen, D.E., Cahill, S.M. and Girvin, M.E. (2007) Multiple alignment of membrane proteins for measuring residual dipolar couplings using lanthanide ions bound to a small metal chelator. Journal of the American Chemical Society; 129: 1846-1847

2006 Akana, J, Federov, A, Federov, E, Novak, W, Babbitt, P, Almo, S, Gerlt, J. D-Ribulose 5-Phosphate 3-Epimerase: Functional and Structural Relationships to Members of the Ribulose-Phosphate Binding (β/α)β-Barrel Superfamily. Biochemistry; 45: 2493-2503

Poget SF, Krueger-Koplin ST, Krueger-Koplin RD, Cahill SM, Chandra Shekar S, Girvin ME. NMR Assignment of the Dimeric S. aureus Small Multidrug-Resistance Pump in LPPG Micelles. J Biomol NMR; 36: 10-10 Suppl. 1.

2005 Shekar, S.C., Wu, H., Fu, Z., Yip, S.C., Cahill, S.M., Girvin, M.E., Backer, J.M. (2005) Mechanism of constitutive PI 3-kinase activation by oncogenic mutants of the p85 regulatory subunit. J Biol Chem; 280: 27850-27855

2003 Tian, S., Garcia-Rivera, J., Yan, B., Casadevall, A., and Stark, R. E. Unlocking the molecular structure of fungal melanin using 13C biosynthetic labeling and solid-state NMR. Biochemistry; 42: 8105-8109

City University of New York

2009 Piserchio, A., P. A. Nair, et al. (2009). Sequence-specific H-1(N), C-13, and N-15 backbone resonance assignments of the 34 kDa Paramecium bursaria Chlorella virus 1 (PBCV1) DNA ligase. Biomolecular Nmr Assignments; 3 (1): 77-80

Ferrage F., Cowburn D., Ghose R. Accurate Sampling of High-Frequency Motions in Proteins by Steady-State (15)N-{(1)H} Nuclear Overhauser Effect Measurements in the Presence of Cross-Correlated Relaxation. J Am Chem Soc 2009 May 6; 131 (17): 6048-9

2008 Zhong J, Frases S, Wang H, Casadevall A, Stark RE. (2008) Following Fungal Melanin Biosynthesis with Solid-State NMR: Biopolymer Molecular Structures and Possible Connections to Cell-Wall Polysaccharides. Biochemistry; 47: 4701-4710

Ferrage F, Piserchio A, Cowburn D, Ghose R. (2008) On the Measurement of 15N-{1H} Nuclear Overhauser Effects. J Mag Res; 192: 302-313

Eryilmaz E, Benach J, Su M, Seetharaman J, Dutta K, Wei H, Gottlieb P, Hunt JF, Ghose R. Structure and Dynamics of the P7 Protein from the Bacteriophage φ12. J Mol Biol 2008 Oct 3; 382 (2): 402-22

Yang J, Tasayco ML, Polenova T. (2008) Magic Angle Spinning NMR Experiments for Structural Studies of Differentially Enriched Protein Interfaces and Protein Assemblies. J Am Chem Soc; 30: 5798-807

2007 He, X. Yang, H. Wang, R. Estephan, F. Francis, S. Kodukula, J. Storch, and R. E. Stark. Solution-State Molecular Structure of Apo and Oleate-Liganded Liver Fatty Acid-Binding Protein. Biochemistry; 46: 12543-12556

Quijada J, Lopez G, Versace R, Ramirez L, Tasayco ML 'On the NMR analysis of pK(a) values in the unfolded state of proteins by extrapolation to zero denaturant.' Biophys Chem 129: 242-50

Dong W, Meriles, CA. Indirect detection of NMR via geometry-dependent dipolar fields, revisited. Journal of Magnetic Resonance; 186: 330-336

Nicotera, I., McLachlan, G. D., Bennett, G. D., Plitz, I., Badway, F., Amatucci, G. G., Greenbaum, S. G., Solid-State NMR Characterization of Electrolyte Breakdown Products iin Nonaqueous Asymmetric Hybrid Supercapacitors. Electrochemical and Solid-State Letters 2007; 10(1): A5-A8

2006 Natarayan, A., Ghose, R., M. Hill, J., Structure and Dynamics of ASC2, A Pyrin Domain-Only Protein that Regulates Inflammatory Signalling. J Biol Chem.; 281: 31863-31875

Del Rio, A., Dutta K., Chavez J., Ubarretxena-Belandia, I., Ghose, R., Solution Structure and Dynamics of the N-terminal Cytosolic Domain of Rhomboid Intramembrane Protease from Pseudomonas aeruginosa: Insights into a Functional Role in Intramembrane Proteolysis. J Mol Biol 2006; 365: 109-122

Yu, G. Vengadesan, H., Wang, L., Jashi, T. Yefremov, S. Tian, V. Gaba, I. Shomer and R. E. Stark. Magic-Angle Spinning NMR Studies of Cell Wall-Bound Aromatic-Aliphatic Biopolyesters Associated with Strengthening of Intercellular Adhesion in Potato ( Solanum Tuberosum L.) Tuber Parenchyma. Biomacromolecules; 7: 937-944

Pujato M, Navarro A, Versace R, Mancusso R, Ghose R, Tasayco ML. The pH-dependence of amide chemical shift of Asp/Glu reflects its pK(a) in intrinsically disordered proteins with only local interactions. Biochim Biophys Acta; 7: 1227-33

Meriles, CA, Dong W. Indirect detection of nuclear magnetic resonance via geometrically induced long-range dipolar fields. J. Magn. Res.; 181: 331-335

2005 Alimova, A, Katz, A, Podder, R, Minko, G, Wei, H, Berriman, J, Alfano, R.R., Gottlieb, P. Virus Particles and Receptor Interaction Monitored by Fluorescence Spectroscopy. Photochemistry and Photobiology; 81: 879-883

Marulanda, D, Tasayco, M.L., Cataldi, M., Arriaran, V., Polenova, P. Resonance Assignments and Secondary Structure Analysis of E. coli Thioredoxin by Magic Angle Spinning Solid-State NMR Spectroscopy. Journal of Physical Chemistry B.; 109: 18135-18145

Pujato, M.; Bracken, C.; Mancusso, R.; Cataldi, M.; Tasayco, M. L. pH-Dependence of Amide Chemical Shifts in Natively Disordered Polypeptides Detects Medium-Range Interactions with Ionizable Residues. Biophysical Journal; 89: 3293-3302

2004 Marulanda, D., Tasayco, M.L., McDermott, A., Cataldi, M., Arriaran, V., and Polenova, T. Magic Angle Spinning and Solid-State NMR Spectroscopy for Structural Studies of Protein Interfaces. Resonance Assignments of Differentially Enriched Escherichia coli Thioredoxin Reassembled by Fragment Complementation. J. Am. Chem. Soc.; 126: 16608-16620

Dutta K, Shi HH, Cruz-Chu ER, Kami K, Ghose R. (2004) Dynamic influences on a high-affinity, high-specificity interaction involving the C-terminal SH3 domain of P67(phox). Biochemistry; 43: 8094-8106

2002 Wang, H., He, Y., Kroenke, C. D., Kodukula, S., Storch, J., Palmer, A. G., and Stark, R. E. Titration and exchange studies of liver fatty acid-binding protein with 13C-labeled long-chain fatty acids. Biochemistry; 41: 5453-5461

Columbia University

2010 Melcher, M., Muhle, R., Henrich, P., Kraemer, S., Avril, M., Vigan-Womas, I., Mercereau-Puijalon, O., Fidock, D., Identification of a role for the PfEMP1? semi-conserved head structure in protein trafficking to the surface of Plasmodium falciparum infected red blood cells. Cellular Microbiology 12:10, 1446–1462 (2010).

Filimonenko M, Isakson P, Finley KD, Anderson M, Jeong H, Melia TJ, Bartlett BJ, Myers KM, Birkeland HC, Lamark T, Krainc D, Brech A, Stenmark H, Simonsen A, Yamamoto A. The selective macroautophagic degradation of aggregated proteins requires the PI3P-binding protein Alfy. Mol Cell. 2010 *38*(2):265-79.

Ji H, Coleman J, Yang R, Melia TJ, Rothman JE, Tareste D. Protein determinants of SNARE-mediated lipid mixing. Biophys J. 2010 *99*(2):553-60.

2009 Ramelot T.A., Raman S., Kuzin A.P., Xiao R., Ma L.C., Acton T.B., Hunt J.F., Montelione G.T., Baker D., Kennedy M.A. (2009) Improving NMR protein structure quality by Rosetta refinement: A molecular replacement study. Proteins 2009 Apr; 75 (1):147-67

Miloushev V.Z., Levine J.A., Arbing M.A., Hunt J.F., Pitt G.S., Palmer A.G. III. (2009) Solution Structure Of The NaV1 2 C-Terminal EF-Hand Domain J Biol Chem 2009 Mar 6; 284 (10):6446-54

Cheung J., Hendrickson W.A. (2009) Structural analysis of ligand stimulation of the histidine kinase NarX. Structure 2009 Feb 13; 17 (2):190-201

Vorobiev S.M., Su M., Seetharaman J., Huang Y.J., Chen C.X., Maglaqui M., Janjua H., Proudfoot M., Yakunin A., Xiao R., Acton T.B., Montelione G.T., Tong L. (2009) Crystal structure of human retinoblastoma binding protein 9. Proteins 2009 Feb 1; 74 (2):526-9

Price, W.N. II, Chen Y., Handelman S.K., Neely H., Manor P., Karlin R., Nair R., Liu J., Baran M., Everett J., Tong S.N., Forouhar F., Swaminathan S.S., Acton T., Xiao R., Luft J.R., Lauricella A., DeTitta G.T., Rost B., Montelione G.T., Hunt J.F. (2009) Understanding the physical properties that control protein crystallization by analysis of large-scale experimental data. Nat Biotechnol 2009 Jan; 27 (1):51-7

2008 Siemer A.B., McDermott A.E. (2008) Solid-State NMR on a Type III Antifreeze Protein in the Presence of Ice. J Am Chem Soc 2008 Dec 24; 130 (51):17394-9

Parish, D., Benach, J., Liu, G., Singarapu, R., Xiao, R., Acton, T., Hunt, J., Montelione, G., Szyperski, T. Protein Chaperones Q8ZP25_SALTY from Salmonella Typhimurium and HYAE_ECOLI from Escherichia coli Exhibit Thioredoxin-like Structures Despite Lack of Canonical Thioredoxin Active Site Sequence Motif. J Struct Funt Genomics 2008 Nov 26 9 :41-49

Pan Y., Weng J., Kabaleeswaran V., Li H., Cao Y., Bhosle R.C., Zhou M. Cortisone dissociates the Shaker family K+ channels from their beta subunits. Nat Chem Biol 2008 Nov; 4 (11):708-14

Cheung J, Hendrickson WA. Crystal structures of C4-dicarboxylate ligand complexes with sensor domains of histidine kinases DcuS and DcAB. J Biol Chem. 2008 Oct 31; 283 (44):30256-65

Huang L, McDermott AE. (2008) Partial site-specific assignment of a uniformly (13)C, (15)N enriched membrane protein, light-harvesting complex 1 (LH1), by solid state NMR. Biochim Biophys Acta Sep; 1777 (9):1098-108

Vila J.A., Aramini J.M., Rossi P., Kuzin A., Su M., Seetharaman J., Xiao R., Tong L., Montelione G.T., Scheraga H.A. Quantum chemical 13C(alpha) chemical shift calculations for protein NMR structure determination, refinement, and validation. Proc Natl Acad Sci U S A 2008 Sep 23; 105 (38): 14389-94

Miloushev VZ, Bahna F, Ciatto C, Ahlsen G, Honig B, Shapiro L, Palmer AG. Dynamic Properties of a Type II Cadherin Adhesive Domain: Implications for the Mechanism of Strand-Swapping of Classical Cadherins. Structure 2008 Aug; 16 (8): 1195-205

Lorieau JL, Day LA, McDermott AE. (2008) Conformational dynamics of an intact virus: Order parameters for the coat protein of Pf1 bacteriophage. Proc Natl Acad Sci U S A. 2008 Jul 29; 105 (30): 10366-71

Xiang, S., and Tong, L. Crystal Structures of Human and Staphylococcus aureus Pyruvate Carbozylase and Molecular Insights into the Carboxyltransfer Reaction. Nat Struct Mol Biol, 15 (3): 295-302

Cheung J, Bingman CA, Reyngold M, Hendrickson WA, Waldburger CD. (2008) Crystal structure of a functional dimer of the PhoQ sensor domain. J Biol Chem; 283: 13762-70

Shen Y, Tong L. (2008) Structural Evidence for Direct Interactions between the BRCT Domains of Human BRCA1 and a Phospho-peptide from Human ACC1. Biochemistry; 47: 5767-73

Forouhar F, Abashidze M, Xu H, Grochowski L L, Seetharaman J, Hussain M, Kuzin A, Chen Y, Zhou W, Xiao R, Acton T B, Montelione G T, Galinier A, White R H,Tong L. (2008) Molecular insights into the biosynthesis of the F420 coenzyme. J Biol Chem; 283: 11832–40

Koehnke J, Jin X, Trbovic N, Katsamba PS, Brasch J, Ahlsen G, Scheiffele P, Honig B, Palmer AG 3rd, Shapiro L. (2008) Crystal Structures of beta-Neurexin 1 and beta-Neurexin 2 Ectodomains and Dynamics of Splice Insertion Sequence 4. Structure; 16: 410-21

Xiang S, Tong L. (2008) Crystal Structures of Human and Staphylococcus aureus Pyruvate Carboxylase and Molecular Insights into the Carboxyltranser Reaction. Nat. Struct. Mol Biol.; 15 (3): 295-302

2007 Hendrickson WA. Impact of structures from the protein structure initiative. Structure; 15: 1528-9

Varga K, Tian L, McDermott AE. Solid-state NMR study and assignments of the KcsA potassium ion channel of S. lividans. Biochim Biophys Acta; 1604-13

Amodeo GA, Rudolph MJ, Tong L. Crystal structure of the heterotrimer core of Saccharomyces cerevisiae AMPK homologue SNF1. Nature; 449: 492-5

Tao, X, Tong, L. Crystal Structure of the MAP Kinase Binding Domain and the Catalytic Domain of Human MKP5. Protein Sci. 16: 880

Yin C, Khan JA, Swapna GV, Ertekin A, Krug RM, Tong L, Montelione GT. Conserved surface features form the double-stranded RNA-binding site of non-structural protein 1 (NS1) from influenza A and B viruses. J Biol Chem; 282: 20584-20592

Liu Q, Hendrickson WA. Insights into hsp70 chaperone activity from a crystal structure of the yeast hsp110 sse1. Cell 131,106-20.

Benach J, Wang L, Chen Y, Ho CK, Lee S, Seetharaman J, Xiao R, Acton TB, Montelione GT, Deng H, Sun R, Tong L. Structural and functional studies of the abundant tegument protein ORF52 from murine gammaherpesvirus-68. J. Biol. Chem; 282: 31534-31541

Li J, Mao X, Dong LQ, Liu F, Tong L 'Crystal Structures of the BAR-PH and PTB Domains of Human APPL1. Structure; 15: 525-33

Valentine ER, Ferrage F, Massi F, Cowburn D, and Palmer AG. Joint Composite-Rotation Adiabatic-Sweep Isotope Filtration. J. Biomol. NMR; 38: 11-22

Williams JC, Roulhac PL, Roy AG, Vallee RB, Fitzgerald MC, Hendrickson WA. Structural and thermodynamic characterization of a cytoplasmic dynein light chain-intermediate chain complex. Proc Natl Acad Sci U S A; 104: 10028-10033

Martinez-Hackert, E, Hendrickson, WA. Structures of and interactions between domains of trigger factor from Thermotoga maritima. Acta Crystallogr D Biol Crystallogr; 63: 536-47

Vorobiev SM, Neely H, Seetharaman J, Ma LC, Xiao R, Acton TB, Montelione GT, Tong L.Crystal structure of AGR_C_4470p from Agrobacterium tumefaciens. Protein Sci; 16: 535-8

Bai Y, Auperin TC, Tong L. The use of in situ proteolysis in the crystallization of murine CstF?-77. Acta Crystallograph Sect F Struct Biol Cryst Commun 2007 Feb 1; 63 (Pt 2): 135-8

Goldbourt A, Gross BJ, Day LA, McDermott AE. Filamentous Phage Studied by Magic-Angle Spinning NMR: Resonance Assignment and Secondary Structure of the Coat Protein in Pf1. J Am Chem Soc; 129: 2338-2344

Townley R, Shapiro L 'Crystal Structures of the Adenylate Sensor from Fission Yeast AMP-Activated Protein Kinase. Science; 315: 1726-1729

Forouhar F, Anderson JL, Mowat CG, Vorobiev SM, Hussain A, Abashidze M, Bruckmann C, Thackray SJ, Seetharaman J, Tucker T, Xiao R, Ma LC, Zhao L, Acton TB, Montelione GT, Chapman SK, Tong L. Molecular insights into substrate recognition and catalysis by tryptophan 2,3-dioxygenase. Proc Natl Acad Sci U S A; 104: 473-78

Xiang S, Usunow G, Lange G, Busch M, Tong L. Crystal structure of 1-deoxy-D-xylulose 5-phosphate synthase (DXS), a crucial enzyme for isoprenoids biosynthesis. J Biol Chem; 282: 2676-2682

Mandel CR, Kaneko S, Zhang H, Gebauer D, Vethantham V, Manley JL, Tong L. Polyadenylation factor CPSF-73 is the pre-mRNA 3'-end-processing endonuclease. Nature; 282: 953-956

2006 Joel A. Butterwick and Arthur G. Palmer, III. An inserted Gly residue fine tunes dynamics between mesophilic and thermophilic ribonucleases. Protein Sci. 2006; 15: 2697-2707

Armstrong N, Jasti J, Beich-Frandsen M, Gouaux E. Measurement of Conformational Changes accompanying Desensitization in an Ionotropic Glutamate Receptor. Cell; 127: 85-97

Jingshi Shen, David C. Tareste, Fabienne Paumet, James E. Rothman and Thomas J. Melia. Selective Activation of Cognate SNAREpins by Sec1/Munc18 Proteins. Cell; 128: 183-195

Mandel CR, Gebauer D, Zhang H, Tong L. A serendipitous discovery that in situ proteolysis is essential for the crystallization of yeast CPSF-100 (Ydh1p). Acta Crystallograph Sect F Struct Biol Cryst Commun; 62: 1041-5

Massi F, Wang C, Palmer AG. Solution NMR and computer simulation studies of active site loop motion in triosephosphate isomerase. Biochemistry; 36: 10787-94

Lorieau JL, McDermott AE. Conformational flexibility of a microcrystalline globular protein: order parameters by solid-state NMR spectroscopy. J Am Chem Soc; 128: 11505-12

Shen, Y., Chou, C.Y., Chang, G.G., Tong, L. Is dimerization required for the catalytic activity of bacterial biotin carboxylase? Molecular Cell; 22: 807-818

Lim, D., Gregorio, G.G., Bingman, C., Martinez-Hackert, E., Hendrickson, W.A., Goff, S.P. Crystal Structure of the Moloney Murine Leukemia Virus RNase H Domain. J Virol; 80: 8379-8389

Kawate, T, Gouaux, E. Fluorescence-Detectino Size-Exclusion Chromatography for Precrystallization Screening of Integral Membrane Proteins. Structure; 14: 673-681

Hsiao YS, Jogl G, Tong L. Crystal structures of murine carnitine acetyltransferase in ternary complexes with its substrates. J Biol Chem; 281: 28480-28497

Yu, B. Edstrom, W.C., Benach, J., Hamuro, Y., Weber, P.C., Gibney, B.R., Hunt, J.F. (2006) Crystal structures of catlytic Complexes of the oxidative DNA/RNA repair enzyme AlkB. Nature; 439: 879-884

Edwards , T.A., Butterwick, J.A., Zeng, L., Gupta, Y.K., Wang, X, Wharton, R.P., Palmer, A.G., Aggarwal, A.K. Solution Structure of the Vts1 SAM Domain in the Presence of RNA J. Mol. Biol.; 356: 1065-1072

Tang Y, Grey MJ, McKnight J, Palmer AG, Raleigh DP. Multistate Folding of the Villin Headpiece Domain. J Mol Biol; 355: 1066-1072

Grey, M.J., Tang, Y, Alexov, E, McKnight, C.J., Raleigh, D.P.,Palmer, A.G. (2006) Characterizing a Partially Folded Intermediate of the Villin Headpiece Domain Under Non-denaturing Conditions: Contribution of His41 to the pH-dependent Stability of the N-terminal Subdomain . Journal of Molecular Biology; 355: 1078-1094

Forouhar, F.; Hussain, M.; Farid, R.; Benach, J.; Abashidze, M.; Edstrom, W. C.; Vorobiev, S. M.; Xiao, R.; Acton, T. B.; Fu, Z.; Kim, J. J.; Miziorko, H. M.; Montelione, G. T.; Hunt, J. F. Crystal structures of two bacterial 3-hydroxy-3-methylglutaryl-CoA lyases suggest a common catalytic mechanism among a family of TIM barrel metalloenzymes cleaving carbon-carbon bonds. J Biol Chem 2006; 281: 7533-45

2005 Furukawa, H, Singh, S, K, Mancusso, R, Gouaux,E. Subunit arrangement and function in NMDA receptors. Nature; 438: 185-92

Benach, J.; Edstrom, W. C.; Lee, I.; Das, K.; Cooper, B.; Xiao, R.; Liu, J.; Rost, B.; Acton, T. B.; Montelione, G. T.; Hunt, J. F. The 2.35 A structure of the TenA homolog from Pyrococcus furiosus supports an enzymatic function in thiamine metabolism. Acta Crystallogr D Biol Crystallogr; 61: 589-98

Forouhar, F.; Lee, I. S.; Vujcic, J.; Vujcic, S.; Shen, J.; Vorobiev, S. M.; Xiao, R.; Acton, T. B.; Montelione, G. T.; Porter, C. W.; Tong, L., Structural and functional evidence for Bacillus subtilis PaiA as a novel N1-spermidine/spermine acetyltransferase. J Biol Chem; 280: 40328-36

Khan, J, Dunn, B, Tong, L. Crystal Structure of Human Taspase1, a Crucial Protease Regulating the Function of MLL. Structure; 13: 1443-1452.

Gorman J, Shapiro L. Crystal structures of the tryptophan repressor binding protein WrbA and complexes with flavin mononucleotide. Protein Sci; 12: 3004-3012

Fan Q., Hendrickson, W. Structure of Human Follicle-Stimulating Hormone in Complex with its Receptor. Nature; 433: 269-277

Gorman, J, Shapiro, L. Crystal structures of the tryptophan repressor binding protein WrbA and complexes with flavin mononucleotide. Protein Sci; 12: 3004-12

Valentine, E. R., and Palmer, A. G., 3rd. Microsecond-to-Millisecond Conformational Dynamics Demarcate the GluR2 Glutamate Receptor Bound to Agonists Glutamate, Quisqualate, and AMPA. Biochemistry; 44: 3410-3417

Forouhar, F., Yang, Y., Kumar, D., Chen, Y., Fridman, E., Park, S.W., Chiang, Y., Acton, T.B., Montelione, G.T., Pichersky, E., Klessig, D.F., Tong, L. Structural and Biochemical Studies Identify Tabacco SABP2 as a Methyl Salicylate Esterase and Implicate it it Plant Innate Immunity. Proc Natl Acad Sci USA; 102: 1773-1778

Inanobe, A., Furukawa, H., Gouaux, E. Mechanism of Partial Agonist Action at the NR1 Subunit of NMDA Receptors. Neuron.; 47: 71-84

Jogl, G., Hsiao, Y., Tong, L. Crystal Structure of Mouse Carnitine Octanoyltransferase and Molecular Determinants of Substrate Selectivitiy. J. Biol. Chem.; 280: 738-744

Marina A, Waldburger CD, Hendrickson WA. (2005) Structure of the entire cytoplasmic portion of a sensor histidine-kinase protein. EMBO J; 24: 4247-4259

Olson, R., Gouaux, E. Crystal Structure of the Vibrio cholerae Cytolysin(VCC) Pro-toxin and its Assembly into a Heptameric Transmembrane Pore. J. Mol. Biol.; 350: 997-1016

Zech, S.J., Wand, A.J., McDermott, A.E. Protein Structure Determination by high resolution solid-state NMR spectroscopy: Application to microcrystalline ubiquitin. J Am Chem Soc; 127: 8618-8626

Huang,C.C., Stricher, F., Martin,L., Decker, J.M., Majeed, S., Barthe, P., Hendrickson,W.A., Robinson,J., Roumestand, C., Sodroski,J. , Wyatt,R., Shaw, G.M, Vita ,C. , Kwong, P.D, Scorpion-toxin mimics of CD4 in complex with human immunodeficiency virus gp120: crystal structures, molecular mimicry, and neutralization breadth. Structure; 13: 755-768

Williams, J.C. , Sue,C., Banting,G.S., Yang, H. , Glerum, D.M., Hendrickson, W.A. and Schon, E.A. (2005) Crystal Structure of Human SCO1: Implications for Redox Signaling by Mitochondrial Cytochrome c Oxidase "Assembly" Protein. J. Biol. Chem.; 280: 15202-15211

Williams, J.C. , Xie, H., and Hendrickson, W.A. Crystal Structure of Dynein Light Chain TcTex-1. J. Biol. Chem.; 280: 21981-21986

2004 Forouhar, F., Lee, I., Benach, J., Kulkarni, K., Xiao, R., Acton, T., Montelione, G., Tong, L. A Novel Nad-Binding Protein Revealed by the Crystal Structure of 2,3-Diketo-L-Gulonate Reductase (YIAK). J. Biol. Chem.; 279: 13148-13155

Yernool, D., Boudker, O., Jin, Y., Gouaux, E. (2004) Structure of a Glutamate Transporter Homologue From Pyrococcus Horikoshii. Nature; 431: 811

Kovall, R., Hendrickson, W. Crystal Structure of the Nuclear Effector of Notch Signaling, CSL, Bound to DNA. EMBO J.; 23: 3441-3451

Zhang,H., Tweel, B., Li, J., Tong, L. Crystal Structure of the Carboxyltransferase Domain of Acetyl-Coenzyme A Carboxylase in Complex with CP-640186. Structure; 12: 1683-1691

Mancia, F. , Patel, S.D., Rajala, M.W., Scherer, P.E., Nemes, A., Schieren, I., Hendrickson , W.A., and Shapiro, L. Optimization of Protein Production in Mammalian Cells with a Coexpressed Fluorescent Marker. Structure; 12: 1355-1360

Blankenfeldt, W., Kuzin, A., Skarina, T., Korniyenko, Y., Tong, L., Bayer, P., Janning, P., Thomashow, L., Mavrodi, D. Structure and Function of the Phenazine Biosynthetic Protein PhzF from Pseudomonas Fluorescens. Proc Natl Acad Sci USA; 101: 16431-16436

Chen, Y., Li, M., Zhang, Y., He, L., Yamada, Y., Fitzmaurice, A., Shen, Y., Zhang, H., Tong, L., Yang, Y Structural Basis of the α 1-β Subunit Interaction of Voltage-Gated Ca2+ Channels. Nature; 429: 675

Huang, C.C., Venturi, M., Majeed, S., Moore, M. J., Phogat, S., Zhang, M. Y., Dimitrov, D. S., Hendrickson, W., Robinson, J., Sodroski, J., Wyatt, R., Choe, H., Farzan, M., Kwong, P.D. Structural Basis of Tyrosine Sulfation and VH-gene Usage in Antibodies that Recognize the HIV Type 1 Coreceptor-Binding Site on gp120. Proc Natl Acad Sci USA; 101: 2706-2711

Patel, S, Rajala, M, Rossetti, L, Scherer, P, Shapiro, L. Disulfide-Dependent Multimeric Assembly of Resistin Family Hormones. Science; 304: 1154-1158

Jogl, G.,Tong, L.. Crystal Structure of Yeast Acetyl-Coenzyme A Synthetase in Complex with AMP. Biochemistry; 43: 1425-1431

Goldsmith-Fischman, S., Kuzin, A., Edstrom, A., Benach, J., Shastry, R., Xiao, R., Acton, T., Honig, B., Montelione, G., Hunt, J. The SufE Sulfur-Acceptor Protein Contains a Conserved Core Structure that Mediates Interdomain Interactions in a Variety of Redox Protein Complexes. J. Mol. Biol.; 344: 549-565

Shen, Y., Volrath, S., Weatherly, S., Elich, T., Tong, L. A Mechanism for the Potent inhibition of Eukaryotic Acetyl Coenzyme A Carboxylase by Soraphen A, a Macrocyclic Polyketide Natural Product. Mol. Cell; 16: 881-891

Gebauer, J., Li, J., Jogl, G., Shen, Y., Myszka, D., Tong, L. Crystal structure of the PH-BEACH domains of human LRBA/BGL. Biochemistry; 43: 14873-14880

Khan, K., Brint, E., O'Neill, L., Tong, L. Crystal Structure of the Toll/interleukin-1 Receptor (TIR) Domain of IL-1RAPL. J. Biol. Chem.; 279: 31664-31670

Hsiao, Y., Jogl, G., Tong, L. Structural and Biochemical Studies of the Substrate Selectivity of Carnitine Acetyltransferase. J. Biol. Chem.; 279: 31584-31589

Zhang, H., Tweel, B., Tong, L. Molecular Basis for the Inhibition of the Carboxyltransferase Domain of Acetyl-coenzyme-A Carboxylase by Haloxyfop and Diclofop. Proc Natl Acad Sci USA; 101: 5910-5915

Galdiero, S., Gouaux, E. High Resolution Crystallographic Studies of α-Hemolysin�Phospholipid Complexes Define Heptamer-Lipid Head Group Interactions: Implication for Understanding Protein-Lipid Interactions. Protein Sci.; 13: 1503-1511

Marulanda, D., Tasayco, M.L., McDermott, A., Cataldi, M., Arriaran, V., and Polenova, T. Magic Angle Spinning and Solid-State NMR Spectroscopy for Structural Studies of Protein Interfaces. Resonance Assignments of Differentially Enriched Escherichia coli Thioredoxin Reassembled by Fragment Complementation. J. Am. Chem. Soc.; 126: 16608-16620

Wang, C., Karpowich, N., Hunt, J. F., Rance, M., and Palmer, A. G. Dynamics of ATP-binding cassette contribute to allosteric control, nucleotide binding and energy transduction in ABC transporters. J Mol Biol; 342: 525-537

Butterwick, J. A., Patrick Loria, J., Astrof, N. S., Kroenke, C. D., Cole, R., Rance, M., and Palmer, A. G., 3rd . Multiple time scale backbone dynamics of homologous thermophilic and mesophilic ribonuclease HI enzymes. J Mol Biol; 339: 855-871

Zech, S. G., Olejniczak, E., Hajduk, P., Mack, J., and McDermott, A. E. Characterization of protein-ligand interactions by high-resolution solid-state NMR spectroscopy. J Am Chem Soc; 126: 13948-13953

2003 Wang, C., Rance, M., and Palmer, A. G. Mapping chemical exchange in proteins with MW > 50 kD. J Am Chem Soc; 125: 8968-8969

Memorial Sloan-Kettering Cancer Center

2007 Phan AT, Kuryavyi V, Burge S, Neidle S, Patel DJ. Structure of an Unprecedented G-Quadruplex Scaffold in the Human c-kit Promoter. J Am Chem Soc; 129: 4386-4392

Phan AT, Kuryavyi V, Luu KN, Patel DJ. Structure of two intramolecular G-quadruplexes formed by natural human telomere sequences in K+ solution. Nucleic Acids Res 35: 6517-25

Rodriguez FA, Cai Y, Lin C, Tang Y, Kolbanovskiy A, Amin S, Patel DJ, Broyde S, Geacintov NE. 'Exocyclic amino groups of flanking guanines govern sequence-dependent adduct conformations and local structural distortions for minor groove-aligned benzo[a]pyrenyl-guanine lesions in a GG mutation hotspot context. Nucleic Acids Res; 35: 1555-1568

2006 Li H, Ilin S, Wang W, Duncan EM, Wysocka J, Allis CD, Patel DJ. Molecular basis for site-specific read-out of histon H3K4me3 by the BPTF PHD finger of NURF Nature; 442: 31-2

Phan A.T., Luu K.N., Patel D.J. Different loop arrangements of intramolecular human telomeric (3+1) G-quadruplexes in K+ solution. Nucleic Acids Res.: 34: 5715-5719

Luu K.N., Phan A.T., Kuryavyi V., Lacroix L., Patel D.J. Structure of the human telomere in K+ solution: an intramolecular (3 + 1) G-quadruplex scaffold. J. Am. Chem. Soc.; 128: 9963-9970

Teplova M., Yuan Y.R., Phan A.T., Malinina L., Ilin S., Teplov A., Patel D.J. Structural basis for recognition and sequestration of UUU(OH) 3' termini of nascent RNA polymerase II transcripts by LA, a rheumatic diseaase autoanitgen. Mol. Cell; 21: 75-85

Yunus AA, Lima CD 'Lysine activation and functional analysis of E2-mediated conjugation in the SUMO pathway. Nat Struct Mol Biol; 13: 491

2005 Phan A.T., Kuryavyi V., Gaw H.Y., Patel D.J. Small-molecule interaction with a five-guanine-tract G-quadruplex structure from the human MYC promoter. Nat. Chem. Biol.; 1: 167-173

Zhang N., Phan A.T., Patel D.J. (3+1) assembly of three human telomeric repeats into an asymmetric dimeric G-quadruplex. J. Am. Chem. Soc.; 127: 17277-17285

Zhang, N., Lin, C., Huang, X., Kolbanovskiy, A., Hingerty, B. E., Amin, S., Broyde, S., Geacintov, N. E., and Patel, D. J. Methylation of Cytosine at C5 in a CpG Sequence Context Causes a Conformational Switch of a Benzo[a]pyrene diol epoxide-N(2)-guanine Adduct in DNA from a Minor Groove Alignment to Intercalation with Base Displacement. J Mol Biol; 346: 951-965

Lois, L.M., and Lima, C.D. Structures of the Small Ubiquitin-like MOdifier E1 activating enzyme provide insights into SUMO activation and the mechanism for E2 recruitment to E1. EMBO J.; 24: 439-451

Phan A.T., Kuryavyi V., Ma J.B., Faure A., Androla M.L., Patel D.J. An interlocked dimeric parallel-stranded DNA quadruplex: A potent inhibitor of HIV-1 integrase. Proc. Natl. Acad. Sci. USA; 102: 634-639

Reverter, D., Wu, K., Erdene, T.G., Pan, Z.-Q., Wilkinson, K.D., and Lima, C.D. Structure of the complex between the Ulp/Senp protease family member Den1 and Nedd8. J. Mol. Biol.; 345: 141-151

2004 Cheng, Y., Patel, D. (2004) Crystallographic Structure of the Nuclease Domain of 3'hExo, A DEDDh Family Member, Bound to rAMP. J. Mol. Biol.; 343: 305-312

Phan A.T., Modi Y.S., Patel D.J. Propeller-type parallel-stranded G-quadruplexes in the human c-myc promoter. J. Am. Chem. Soc.; 126: 8710-8716

Serganov A., Yuan Y.R., Pikovskaya O., Polonskaia A., Malinina L., Phan A.T., Hobartner C., Micura R., Breaker R.R., Patel D.J. Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs. Chem. Biol.; 11: 1729-1741

Gu, M., Fabrega, C., Liu, D., Liu, H., Kiledjian, M., Lima, C. Insights into the Structure , Mechanism and Regulation of Scavenger mRNA Decapping Activity. Mol. Cell; 14: 67-80

Fabrega, C., Hausmann, S., Shen, V., Shuman, S., Lima, C. Structure and Mechanism of the mRNA (guanine-N7) cap Methyltransferase. Mol. Cell; 13: 77-89

Reverter, D., Lima, C. A Basis for SUMO Protease Specificity Provided by Analysis of Human Senp2 and a Senp2-SUMO Complex. Structure; 12: 1519-1531

Ho, C., Wang, L., Lima, C., Shuman, S. Structure and Mechanism of RNA Ligase. Structure; 12: 327-339

Buglino, J., Onwueme, K., Ferreras, J., Quadri, L., Lima, C. Crystal Structure of PapA5 , a Phthiocerol Dimycocerosyl Transferase from Mycobacterium Tuberculosis. J. Biol. Chem.; 279 30634-30642

Mount Sinai School of Medicine

2011 Ubarretxena-Belandia I and Stokes D.L. Present and future of membrane protein structure determination by electron crystallography_Advances in Protein Chemistry and Structural Biology_ - In Press (2011).

2010 Ubarretxena-Belandia I and Stokes D.L. Present and future of membrane protein structure determination by electron crystallography Recent Advances in Electron Cryomicroscopy, Part A (2010) vol. 81 pp. 33-60

2008 Chengmin Qian, Side Li, Jean Jakoncic, Lei Zeng, Martin J. Walsh, and Ming-Ming Zhou. (2008) Structure and Hemimethylated CpG Binding of the SRA Domain from Human UHRF1 J Bio Chem 2008 Dec 12; 283 (50): 34490–34494

Zeng L, Yap KL, Ivanov AV, Wang X, Mujtaba S, Plotnikova O, Rauscher Iii FJ, Zhou MM. (2008) Structural insights into human KAP1 PHD finger-bromodomain and its role in gene silencing. Nat Struct Mol Biol.; 6: 626-33

Gupta YK, Nair DT, Wharton RP, Aggarwal AK. (2008) Structures of Human Pumilio with Noncognate RNAs Reveal Molecular Mechanisms for Binding Promiscuity. Structure; 16: 549-557

Zeng L, Zhang Q, Gerona-Navarro G, Moshkina N, Zhou MM. (2008) Structural Basis of Site-Specific Histone Recognition by the Bromodomains of Human Coactivators PCAF and CBP/p300. Structure; 16: 643-52

Cunha L, Kuti M, Bishop DF, Mezei M, Zeng L, Zhou MM, Desnick RJ. (2007) Human uroporphyrinogen III synthase: NMR-based mapping of the active site. Proteins; 71: 855-873

2007 Vink M, Derr K, Love J, Stokes DL, Ubarretxena-Belandia I. (2007) A high-throughput strategy to screen 2D crystallization trials of membrane proteins. J Struct Biol; 160: 295-304

Vanamee ES, Berriman J, Aggarwal AK. An EM view of the FokI synaptic complex by single particle analysis. J Mol Biol; 370: 207-12

2005 Qian C, Zhang Q, Li S, Zeng L, Walsh MJ, Zhou MM. Structure and chromosomal DNA binding of the SWIRM domain. Nat Struct Mol Biol. 2005; 12: 1078-85

Edwards, TA, Butterwick, JA, Zeng, Z, Gupta, YK, Wang, X, Wharton, RP, Palmer, AG, Aggarwal, AK. Solution Structure of the Vts1 SAM Domain in the Presence of RNA J. Mol. Biol.; 365: 1065-1072

2004 Capili, A. D., Edghill, E. L., Wu, K., and Borden, K. L. Structure of the C-terminal RING finger from a RING-IBR-RING/TRIAD motif reveals a novel zinc-binding domain distinct from a RING. J Mol Biol; 340: 1117-1129

2003 Yan, K. S., Yan, S., Farooq, A., Han, A., Zeng, L., and Zhou, M. M. Structure and conserved RNA binding of the PAZ domain. Nature; 426: 468-474

New York University

2010 Owen, G.R., D.L. Stokes, 2010. Exploring the nature of desmosomal cadherin interactions in 3D. Derm. Res. Practice 2010:1-12.

Li, G, R. Margueron, G. Hu, D. Stokes, Y. Wang, D. Reinberg. Highly compacted chromatin formed in vitro reflects the dynamics of transcription activation in vivo. Mol. Cell 38:41-53.

C. Kim, M. Vink, M. Hu, D.L. Stokes, I. Ubarretxena-Belandia, 2010. An automated pipeline to screen membrane protein 2D crystallization, J. Func. Struc. Genomics 11:155-166.

M. Hu, M. Vink, C. Kim, K. Derr, J. Koss, K. D'Amico, I. Ubarretxena-Belandia, D.L. Stokes, 2010. Automated electron microscopy for evaluating two-dimensional crystallization of membrane proteins, J. Struct. Biol. 171:102-110.

2008 Huaibin Chen, Chong-Feng Xu, Jinghong Ma, Anna V. Eliseenkova, Wanqing Li, Pamela M. Pollock, Nelly Pitteloud, W. Todd Miller, Thomas A. Neubert, and Moosa Mohammadi. (2008) A crystallographic snapshot of tyrosine trans-phosphorylation in action. PNAS 2008 Dec 16; 105 (50): 19660–19665

Milstein O., Tseng S.Y., Starr T., Llodra J., Nans A., Liu M., Wild M.K., van der Merwe P.A., Stokes D.L., Reisner Y., Dustin M.L. (2008) Nanoscale increases in CD2-CD48-mediated intermembrane spacing decrease adhesion and reorganize the immunological synapse. J Biol Chem 2008 Dec 5; 283 (49): 34414-22

Acehan D, Petzold C, Gumper I, Sabatini DD, Muller EJ, Cowin P, Stokes DL. Plakoglobin Is Required for Effective Intermediate Filament Anchorage to Desmosomes. J Invest Dermatol 2008 Nov; 128 (11): 2665-75

Deng Y., Liu J., Zheng Q., Li Q., Kallenbach N.R., Lu M. A heterospecific leucine zipper tetramer. Chem Biol 2008 Sep 22; 15 (9): 908-19

Ling W, Eliav U, Navon G, Jerschow A. (2008) Chemical exchange saturation transfer by intermolecular doublequantum coherence. J Magn Reson, Sep; 194 (1): 29-32

Rong P, Regatte RR, Jerschow A. (2008) Clean demarcation of cartilage tissue (23)Na by inversion recovery. J Magn Reson. Aug; 193 (2): 207-9

Wu J, Li W, Craddock BP, Foreman KW, Mulvihill MJ, Ji QS, Miller WT, Hubbard SR. (2008) Small-molecule inhibition and activation-loop trans-phosphorylation of the IGF1 receptor. EMBO J. Jul 23; 27 (14): 1985-94

Ling, W., Regatte, R.R., Schweitzer, M.E., and Jerschow, A. Characterization of bovine patellar cartilage by NMR. NMR Biomed 2008 Mar; 21 (3): 289-95

George EA, Novick RP, Muir TW. (2008) Cyclic Peptide Inhibitors of Staphylococcal Virulence Prepared by Fmoc-Based Thiolactone Peptide Synthesis. J Am Chem Soc; 130: 4914-24

Wu CC, Rice WJ, Stokes DL. (2008) Structure of a copper pump suggests a regulatory role for its metal-binding domain. Structure 16: 976-85

Owen GR, Acehan D, Derr KD, Rice WJ, Stokes DL. (2008) Cryoelectron tomography of isolated desmosomes. Biochem Soc Trans; 36: 173-9

Liu J, Wang D, Zheng Q, Lu M, Arora PS. (2008) Atomic structure of a short alpha-helix stabilized by a main chain hydrogen-bond surrogate. J Am Chem Soc.; 130: 4334-7

Wu J, Tseng YD, Xu CF, Neubert TA, White MF, Hubbard SR. (2008) Structural and biochemical characterization of the KRLB region in insulin receptor substrate-2. Nat Struct Mol Biol; 15: 251-8

2007 Vink M, Derr K, Love J, Stokes DL, Ubarretxena-Belandia I. (2007) A high-throughput strategy to screen 2D crystallization trials of membrane proteins. J Struct Biol; 160: 295-304

Stokes DL Desmosomes from a structural perspective. Curr Opin Cell Biol; 19: 565-71

Hu GB, Rice WJ, Drose S, Altendorf K, Stokes DL 'Three-dimensional structure of the KdpFABC complex of Escherichia coli by electron tomography of two-dimensional crystals. J Struct Biol 2007; Epub Sep 18

Chen H, Ma J, Li W, Eliseenkova AV, Xu C, Neubert TA, Miller WT, Mohammadi M 'A molecular brake in the kinase hinge region regulates the activity of receptor tyrosine kinases. Mol Cell; 27: 717-30

Acehan D, Xu Y, Stokes DL, and Michael Schlame. Comparison of lymphoblast mitochondria from normal subjects and patients with Barth syndrome using electron microscopic tomography Lab Invest. 2007 January; 87 (1): 40–48

2006 Stiegler AL, Burden SJ, Hubbard SR 'Crystal Structure of the Agrin-responsive immunoglobulin-like Domains 1 and 2 of the Receptor Tyrosine Kinase MuSK. J Mol Biol; 364: 424-433

Bergamin, E., Wu, J., Hubbard, S.R. Structural basis for phosphotyrosine recognition by suppressor of cytokine signaling-3. Structure; 14: 1285-1292

N. Muller, A. Jerschow. Nuclear Spin Noise Imaging. Proc. Natl. Acad. Sci. USA 2006; 103: 6790-6792

Rice WJ, Kovalishin A, Stokes DL 'Role of metal-binding domains of the copper pump from Archaeoglobus fulgidus. Biochem Biophys Res Commun; 348: 124-131

Stokes, D.L., A.J. Pomfret, W.J. Rice, J.P. Glaves, H.S.Young. 2006. Interactions between Ca2+-ATPase and the pentameric form of phospholamban in two-dimensional co-crystals. Biophys. J.; 90: 4213-4223

Chen, Z., B.L. Akin , D.L. Stokes , L.R. Jones. 2006. Cross-linking of C-terminal residues of phospholamban to the Ca2+ pump of cardiac sarcoplasmic reticulum to probe spatial and functional interactions within the transmembrane domain. J. Biol. Chem; 281: 14163-14172

Olsen, S, Li, J, Eliseenkova, A, Ibrahimi, O, Lao, Z, Zhang, F, Linhardt, R, Joyner, A, Mohammadi, M. Structural Basis by Which Alternative Splicing Modulates the Organizer Activity of FGF8 in the Brain. Genes Dev; 20: 185-198

2005 Depetris, R.S., Hu, J., Gimpelevich, I., Holt, L.J., Daly, R.J., and Hubbard, S.R. Structural basis for inhibition of the insulin receptor by the adaptor protein Grb14. Mol. Cell; 20: 325-333

Stokes, D.L., F. Delavoie, W.J. Rice, P. Champeil, D.B. McIntosh, J.-J. Lacapere, 2005. Structural Studies of a Stabilized Phosphoenzyme Intermediate of Ca2+-ATPase. J. Biol. Chem.; 280: 18063-18072

Hu, J. and Hubbard, S.R. Structural characterization of a novel Cbl phosphotyrosine-recognition motif in the APS family of adapter proteins J. Biol. Chem.; 280: 18943-18949

Ibrahimi OA, Yeh BK, Eliseenkova AV, Zhang F, Olsen SK, Igarashi M, Aaronson SA, Linhardt RJ, Mohammadi M. Analysis of mutations in fibroblast growth factor (FGF) and a pathogenic mutation in FGF receptor (FGFR) provides direct evidence for the symmetric two-end model for FGFR dimerization. Mol Cell Biol; 25: 671-84

Kumar, R., Ling, W., Schoefberger, W., and Jerschow, A. Separated quadrupolar field experiment. J Magn Reson; 172: 209-213

Li, S., Depetris, R.S., Barford, D., Chernoff, J., and Hubbard, S.R. Crystal structure of a complex between protein tyrosine phosphatase 1B and the insulin receptor tyrosine kinase. Structure; 13: 1643-1651

2004 Liu, J., Yong, W., Deng, Y., Kallenbach, N., Lu, M. Atomic Structure of a Tryptophan-Zipper Pentamer. Proc Natl Acad Sci USA; 101: 16156-16161

Olsen, S.K., Ibrahimi, O.A., Raucci, A., Zhang, F., Eliseenkova, A.V., Yayon, A., Basilico, C., Linhardt, R.J., Schlessinger, J., Mohammadi, M. Insights into the Molecular Basis for Fibroblast Growth Factor Receptor Autoinhibition and Ligand-Binding Promiscuity. Proc Natl Acad Sci USA; 101: 935-940

Ibrahimi, O., Zhang, F., Eliseenkova, A., Linhardt, R., Mohammadi, M. Proline to Arginine Mutations in FGF Receptors 1 and 3 Result in Pfeiffer and Muenke Craniosynostosis Syndromes Through Enhancement of FGF Binding Affinity. Hum. Mol. Genet.; 13: 69-78

2003 He, W., Cowin, P., and Stokes, D. L. Untangling desmosomal knots with electron tomography. Science; 302: 109-113

The Rockefeller University

2009 Matthew J. Bick, Valerie Lamour, Kanagalaghatta R. Rajashankar,Yuliya Gordiyenko, Carol V. Robinson, and Seth A. Darst. (2009) How to Switch Off a Histidine Kinase: Crystal Structure of Geobacillus stearothermophilus KinB with the inhibitor Sda. J Mol Biol 2009 Feb 13; 386 (1): 163-77

2008 Banik, J.J., and Brady, S.F. Cloning and characterization of new glycopeptide gene clusters found in an environmental DNA megalibrary. Proc Natl Acad Sci U S A 2008 Nov 11; 105 (45): 17273-7

Edmund C. Schwartz, Alexander Shekhtman , Kaushik Dutta, Matthew R. Pratt, David Cowburn, Seth Darst and Tom W. Muir. Autoregulation of a Group 1 Bacterial Sigma Factor Involves the Formation of Region 1.1-Induced Compacted Structure. Chemistry and Biology; 15: 1091-1103

Roxana E. Georgescu, Olga Yurieva, Seung-Sup Kim, John Kuriyan, Xiang-Peng Kong, and Mike O'Donnell (2008) Structure of a small-molecule inhibitor of a DNA polymerase sliding clamp. Proc Natl Acad Sci U S A. 2008 Aug 12; 105 (32): 11116-21

George EA, Novick RP, Muir TW. (2008) Cyclic Peptide Inhibitors of Staphylococcal Virulence Prepared by Fmoc-Based Thiolactone Peptide Synthesis. J Am Chem Soc; 130: 4914-24

Banerjee S, Huber T, and Sakmar TP. (2008) Rapid Incorporation of Functional Rhodopsin into Nanoscale Apolipoprotein Bound Bilayer (NABB) Particles. Journal of Molecular Biology; 377: 1067-1081

2007 Ottesen JJ, Bar-Dagan M, Giovani B, Muir TW. An amalgamation of solid phase peptide synthesis and ribosomal peptide synthesis. Biopolymers; 2007 Jul 17 Epub

Wei Y, Liu S, Lausen J, Woodrell C, Cho S, Biris N, Kobayashi N, Wei Y, Yokoyama S, Werner MH. A TAF4-homology domain from the corepressor ETO is a docking platform for positive and negative regulators of transcription. Nat Struct Mol Biol.; 14: 653-61

2006 Li H, Ilin S, Wang W, Duncan EM, Wysocka J, Allis CD, Patel DJ. Molecular basis for site-specific read-out of histone H3K4me3 by the BPTF PHD finger of NURF Nature; 442: 91-95

Carrington PE, Sandu C, Wei Y, Hill JM, Morisawa G, Huang T, Gavathiotis W, Yu W, Werner MH. The structure of FADD and its mode of interaction with procaspase-8 Mol. Cell; 22: 599-610

Ji, H., Shekhtman, A., McDonnell, J., Ghose, R., Cowburn D. (2006) NMR determination that an extended BH3 motif of pro-apoptotic BID is specifically bound to BCL-X_L. Magnetic Res. Chem. 44 101-6

Muralidharan V., Dutta K., Cho J., Vila-Perello M., Raleigh DP., Cowburn D., Muir TW. Solution Structure and Folding Characteristics of the C-Terminal SH3 Domain of c-Crk-II. Biochemistry; 45: 8874-8884

2004 Romanelli, A., Shekhtman, A., Cowburn, D., and Muir, T. W. Semisynthesis of a segmental isotopically labeled protein splicing precursor: NMR evidence for an unusual peptide bond at the N-extein-intein junction. Proc Natl Acad Sci U S A; 101: 6397-6402.

Lambert, L. J., Wei, Y., Schirf, V., Demeler, B., and Werner, M. H. T4 AsiA blocks DNA recognition by remodeling σ(70) region 4. EMBO J; 23: 2952-2962

Cowburn D, Shekhtman A, Xu R, Ottesen JJ, Muir TW. Segmental isotopic labeling for structural biological applications of NMR. Methods Mol Biol.; 278: 47-56

2003 Ottesen, J. J., Blaschke, U. K., Cowburn, D., and Muir, T. W. Segmental isotopic labeling: Prospects for a new tool to study the structure-function relationships in multidomain proteins. In Biological Magnetic Resonance, R. N. Krishna, and L. J. Berliner, eds. (New York, Kluwer), pp. 35-51. ^a,b

2002 Camarero, J. A., Shekhtman, A., Campbell, E. A., Chlenov, M., Gruber, T. M., Bryant, D. A., Darst, S. A., Cowburn, D., and Muir, T. W. (2002). Autoregulation of a bacterial sigma factor explored by using segmental isotopic labeling and NMR. Proc Natl Acad Sci U S A; 99: 8536-8541

Shekhtman, A., and Cowburn, D. A ubiquitin-interacting motif from Hrs binds to and occludes the ubiquitin surface necessary for polyubiquitination in monoubiquitinated proteins. Biochem Biophys Res Commun; 296: 1222-1227

Shekhtman, A., Ghose, R., Goger, M., and Cowburn, D. NMR structure determination and investigation using a reduced proton (REDPRO) labeling strategy for proteins. FEBS Lett; 524: 177-182

2001 Ghose, R., Shekhtman, A., Goger, M. J., Ji, H., and Cowburn, D. A novel, specific interaction involving the Csk SH3 domain and its natural ligand. Nat Struct Biol; 8: 998-1004

McDonnell, J. M., Calvert, R., Beavil, R. L., Beavil, A. J., Henry, A. J., Sutton, B. J., Gould, H. J., and Cowburn, D. The structure of the IgE Cε2 domain and its role in stabilizing the complex with its high-affinity receptor FcεRIα. Nat Struct Biol; 8: 437-441

Shekhtman, A., Ghose, R., Wang, D., Cole, P. A., and Cowburn, D. Novel mechanism of regulation of the non-receptor protein tyrosine kinase Csk: insights from NMR mapping studies and site-directed mutagenesis. J Mol Biol; 314: 129-138

State University of New York

2008 Huaibin Chen, Chong-Feng Xu, Jinghong Ma, Anna V. Eliseenkova, Wanqing Li, Pamela M. Pollock, Nelly Pitteloud, W. Todd Miller, Thomas A. Neubert, and Moosa Mohammadi. (2008) A crystallographic snapshot of tyrosine trans-phosphorylation in action. PNAS 2008 Dec 16; 105 (50): 19660–19665

Xie J, Reverdatto S, Frolov A, Hoffmann R, Burz DS, Shekhtman A. Structural basis for pattern recognition by the receptor for advanced glycation end products (RAGE). J Biol Chem. 2008 Oct 3; 283 (40): 27255-69

Shan B, Bhattacharya S, Eliezer D, Raleigh DP. The Low-pH Unfolded State of the C-Terminal Domain of the Ribosomal Protein L9 Contains Significant Secondary Structure in the Absence of Denaturant but Is No More Compact Than the Low-pH Urea Unfolded State. Biochemistry 2008 Sep 9; 47 (36): 9565-73

Burz DS, Shekhtman A. (2008) In-cell biochemistry using NMR spectroscopy. PLoS ONE. 2008 Jul 2; 3 (7): e2571

Liu Q, Dansereau JT, Puttamadappa SS, Shekhtman A, Derbyshire V, Belfort M. (2008) Role of the interdomain linker in distance determination for remote cleavage by homing endonuclease I-TevI. J Mol Biol. 2008 Jun 20; 379 (5): 1094-106

Qi Zhang, Hanudatta S. Atreya, Douglas E. Kamen, Mark E. Girvin, Thomas Szyperski (2008) GFT projection NMR based resonance assignment of membrane proteins: application to subunit c of E. coli F1F0 ATP synthase in LPPG micelles J Biomol NMR 2008; 40: 157–163

2007 Yakubovskaya E, Lukin M, Chen Z, Berriman J, Wall JS, Kobayashi R, Kisker C, Bogenhagen DF. The EM structure of human DNA polymerase gamma reveals a localized contact between the catalytic and accessory subunits. EMBO J. 26: 4283-91

Kempf, J. G.; Jung, J-y.; Ragain, C.; Sampson, N. S.; Loria, J. P. Dynamic Requirements for a functional protein hinge. 2007 J. Mol. Biol; 368: 131-149

2006 Lemaster DM, Hernandez G. Residue cluster additivity of thermodynamic stability in the hydrophobic core of mesophile vs. hyperthermophile rubredoxins. Biophys Chem; 125: 483-489

Burz, D.S., Dutta, K., Cowburn, D., Shekhtman, A. (2006) Mapping structural interactions in proteins using NMR (STINT-NMR). Nature Methods; 3: 93-95

Burz, D.S., Dutta, K., Cowburn, D., Shekhtman, A. (2006) Mapping structural interactions in proteins using NMR (STINT-NMR). Nature Protocols; 1: 146-152

Muralidharan V., Dutta K., Cho J., Vila-Perello M., Raleigh DP., Cowburn D., Muir TW. Solution Structure and Folding Characteristics of the C-Terminal SH3 Domain of c-Crk-II Biochemistry; 45: 8874-8884

Tang Y, Grey MJ, McKnight J, Palmer AG. Raleigh DP Multistate Folding of the Villin Headpiece Domain. J Mol Biol; 355: 1066-1072

Tang Y, Goger MJ, Raleigh DP. NMR Characterization of a Peptide Model Provides Evidence for Significant Structure in the Unfolded State of the Villin Headpiece Helical Subdomain. Biochemistry; 45: 6940-6946

2005 Kempf, JG, Jung, J, Ragain, CM, Sampson, NS, Loria, JP. Entropic Control in Catalysis from the Functional Dynamics of a Protein Hinge. 46th Experimental NMR Conference, Providence, RI (15 Apr 2005)

Peng, L., Liu, Y., Kim, N., Readman, J.E., and Grey, C.P. Detection of Bronsted acid sites in zeolite HY with high-field 17O-MAS-NMR techniques. Nature Materials; 4: 216-219

Wadsworth Center, New York State Department of Health

2008 Wilson R, Pata J. 'Structural Insights into the Generation of SIngle-Base Deletions by the Y Family DNA Polymerase Dbh. Mol. Cell, 29 (6), 767-779

2007 Lemaster DM, Hernandez G. Residue cluster additivity of thermodynamic stability in the hydrophobic core of mesophile vs. hyperthermophile rubredoxins. Biophys Chem; 125 (2-3): 483-489

Yangsheng Zhou; Debashish Ray; Yiwei Zhao; Hongping Dong; Suping Ren; Zhong Li; Yi Guo; Kristen A. Bernard; Pei-Yong Sh; and Hongmin Li. (2007) Structure and Function of Flavivirus NS5 Methyltransferase J Virol.; 81 (8): 3891–3903

LM Wang, YW Zhao, Zh. Li, Y. Guo, D.M. Kranz, W Mourad, H. Li (2007). Structure of a complete ternary complex between TCR, superantigen, and Class II MHC molecule. Nature Structure & Molecular Biology; 14: 169-171

2006 Bennett MT, Rodgers MT, Hebert AS, Ruslander LE, Eisele L, Drohat AC. Specificity of Human Thymine DNA Glycosylase Depends on N-Glycosidic Bond Stability. J Am Chem Soc; 128: 12510-12519

Weill Medical College of Cornell University

2008 Deng Y., Liu J., Zheng Q., Li Q., Kallenbach N.R., Lu M. A heterospecific leucine zipper tetramer. Chem Biol 2008 Sep 22; 15 (9):908-19

Shan B, Bhattacharya S, Eliezer D, Raleigh DP. The Low-pH Unfolded State of the C-Terminal Domain of the Ribosomal Protein L9 Contains Significant Secondary Structure in the Absence ofDenaturant but Is No More Compact Than the Low-pH Urea Unfolded State. Biochemistry 2008 Sep 9; 47 (36): 9565-73

Malgieri G, Eliezer D. (2008) Structural effects of Parkinson's disease linked DJ-1 mutations. Protein Sci.; 17: 855-68

Paleologou KE, Schmid AW, Rospigliosi CC, Kim HY, Lamberto GR, Fredenburg RA, Lansbury PT Jr, Fernandez CO, Eliezer D, Zweckstetter M, Lashuel HA. (2008) Phosphorylation at S129, but not the phosphomimics S129E/D inhibits the fibrilization of α -synuclein. J Biol Chem; 283: 16895-16905

Liu J, Wang D, Zheng Q, Lu M, Arora PS. (2008) Atomic structure of a short alpha-helix stabilized by a main chain hydrogen-bond surrogate. J Am Chem Soc.; 130: 4334-7

Lin S.C., Chung J.Y., Lamothe B., Rajashankar K., Lu M., Lo Y.C., Lam A.Y., Darnay B.G., Wu H. Molecular basis for the unique deubiquitinating activity of the NF-kappaB inhibitor A20. J Mol Biol 2008 Feb 15; 376 (2): 526-40

2007 Sung YH, Eliezer D. Residual Structure, Backbone Dynamics, and Interactions within the Synuclein Family.' J Mol Biol; 372: 689-707

Lu M, Lin SC, Huang Y, Kang YJ, Rich R, Lo YC, Myszka D, Han J, Wu H. XIAP Induces NF-kappaB Activation via the BIR1/TAB1 Interaction and BIR1 Dimerization. Mol Cell.; 26: 689-702

2006 Zheng Q, Deng Y, Liu J, Hoek LV, Berkhout B, Lu M. Core Structure of S2 from the Human Coronavirus NL63 Spike Glycoprotein. Biochemistry; 45: 15205-15215

Liu, J, Deng, Y, Zheng, Q, Cheng, CS, Kallenbach, NR, Lu, M. A Parallel Coiled-Coil Tetramer with Offset Helices. Biochemistry; 45: 15224-15231

Liu J, Zheng Q, Deng Y, Cheng CS, Kallenbach NR, Lu M. A seven-helix coiled coil. Proc Natl Acad Sci U S A; 103: 15457-15462

Barré P, Eliezer D. Folding of the repeat domain of tau upon binding to lipid surfaces J. Mol. Biol.; 362: 312-26

Park HH, Wu H. Crystal Structure of RAIDD Death Domain Implicates Potential Mechanism of PIDDosome Assembly. J Mol Biol; 357: 358-364

Sung, Y, Rospigliosi, C, Eliezer, D. NMR mapping of copper binding sites in α-synuclein. Biochim. Biophys. Acta; 1764: 5-12

Sung, Y, Eliezer, D. Secondary structure and dynamics of micelle bound β- and γ-synuclein. Prot Sci; 15: 1162-1174

Cordero-Morales, J, Cuello, L, Zhao, Y, Jogini, V, Cortes, D, Roux, B, Perozo, E. Molecular Determinants of Gating at the Potassium-Channel Selectivity Filter. Nat. Struct. Mol. Biol: 13: 311

Deng, Y, Liu, J, Zheng, Q, Eliezer, D, Kallenbach, N, Lu, M. Antiparallel Four-Stranded Coiled Coil Specified by a 3-3-1 Hyrdrophobic Heptad Repeat. Structure; 14: 247-255

Deng, Y, Liu, J, Zheng, Q, Yong, W, Lu, M. Structures and Polymorphic Interactions of Two Heptad-Repeat Regions of the SARS Virus S2 Protein. Structure; 14: 889-899

2005 Bussell, R Jr, Ramlall, T F, Eliezer, D. Helix Periodicity, Topology and Dynamics of Membrane-Associated alpha-Synuclein. Prot Sci; 14: 862-872

Eliezer, D, Barr, P, Kobaslija, M, Chan, D, Li, X, Heend, L. Residual structure in the repeat domain of tau: Echoes of microtubule binding and paired helical filament formation. Biochemistry; 44: 1026-1036

Steegborn C., Litvin T. N., Hess K. C., Capper A. B., Taussig R., Buck J., Levin L.R., Wu H. A novel mechanism for adenylyl cyclase inhibition from the crystal structure of its complex with catechol estrogen. J Biol Chem; 280: 31754-9

Yang, JK, Wang,L, Zheng, L, Wan, F, Ahmed, M, Lenardo,MJ , Wu, H. Crystal Structure of MC159 Reveals Molecular Mechanism of DISC Assembly and FLIP Inhibition. Mol Cell; 20: 939-949

Naik, M.T., Lee, H., Bracken, C. and Breslow, E., NMR Investigation of Main-Chain Dynamics of the H80E Mutant of Bovine Neurophysin-I: Demonstration of Dimerization-Induced Changes at the Hormone-Binding Site. Biochemistry; 44: 11766-11776

Steegborn, C., Litvin, T., Levin, L., Buck, J., Wu, H. Biocarbonate Activation of Adenylyl Cyclase via Promotion of Catalytic Active Site Closure and Metal Recruitment. Nat. Struct. Mol. Biol.; 12: 32

2004 Liu, J., Yong, W., Deng, Y., Kallenbach, N., Lu, M. Atomic Structure of a Tryptophan-Zipper Pentamer. Proc Natl Acad Sci USA; 101: 16156-16161

Dai, J., Liu, J., Deng, Y., Smith, T., Lu, M. Structure and Protein Design of a Human Platelet Function Inhibitor. Cell; 116: 649-659

Ye, H., Chen, T., Xu, X., Pennycooke, M., Wu, H., Steegborn, C. Crystal Structure of the Putative Adapter Protein MTH1859. J. Struct. Biol.; 148: 251-256

New York Structural Biology Center

Allen G.S. and Stokes D.L. Modeling, Docking, Fitting of Atomic Structures to 3D Maps from Cryo-electron Microscopy_Methods in Molecular Biology_ - In Press (2011).

2010 R Diaz, WJ Rice, DL Stokes Fourier-bessel reconstruction of helical assemblies. Methods Enzymol. 2010;*482*:131-165

Ubarretxena-Belandia I and Stokes D.L. Present and future of membrane protein structure determination by electron crystallography Recent Advances in Electron Cryomicroscopy, Part A (2010) vol. 81 pp. 33-60

Stokes DL, Rice WJ, Hu M, Kim C, and Ubarretxena-Belandia I. Two-dimensional crystallization of integral membrane proteins for electron crystallography. Methods Mol. Biol. 654: 187-205 (2010).

Owen, G.R., D.L. Stokes, 2010. Exploring the nature of desmosomal cadherin interactions in 3D. Derm. Res. Practice 2010:1-12.

Li, G, R. Margueron, G. Hu, D. Stokes, Y. Wang, D. Reinberg. Highly compacted chromatin formed in vitro reflects the dynamics of transcription activation in vivo. Mol. Cell 38:41-53.

C. Kim, M. Vink, M. Hu, D.L. Stokes, I. Ubarretxena-Belandia, 2010. An automated pipeline to screen membrane protein 2D crystallization, J. Func. Struc. Genomics 11:155-166.

2009 Ferrage F., Cowburn D., Ghose R. Accurate Sampling of High-Frequency Motions in Proteins by Steady-State (15)N-{(1)H} Nuclear Overhauser Effect Measurements in the Presence of Cross-Correlated Relaxation. J Am Chem Soc 2009 May 6; 131 (17): 6048-9

Piserchio, A., P. A. Nair, et al. (2009). "Sequence-specific H-1(N), C-13, and N-15 backbone resonance assignments of the 34 kDa Paramecium bursaria Chlorella virus 1 (PBCV1) DNA ligase. Biomolecular Nmr Assignments; 3(1): 77-80

2008 Liu D, Xu R, Dutta K, Cowburn D. (2008) N-terminal cysteinyl proteins can be prepared using thrombin cleavage. FEBS letts; 582: 1163-7

Xiong X, Cui P, Hossain S, Xu R, Warner B, Guo X, An X, Debnath A, Cowburn D, Kotula L. (2008) . Allosteric Inhibition of the nonMyristoylated c-Abl Tyrosine Kinase by Phosphopeptides Derived from Abi1/Hssh3bp1. BBA Molecular Cell Research; 1783: 737-47

Bhattacharya S, Zhang H, Debnath AK, Cowburn D. (2008) Solution structure of a hydrocarbon stapled peptide inhibitor in complex with monomeric C-terminal domain of HIV-1 capsid. J Biol Chem; 283: 16274-8

Ferrage F, Piserchio A, Cowburn D, Ghose R. (2008) On the Measurement of 15N-{1H} Nuclear Overhauser Effects. J Mag Res; 192: 302-313

Zhang H, Zhao Q, Bhattacharya S, Waheed A, Tong X, Hong A, Heck S, Curreli F, Goger M, Cowburn D, Freed E, Debnath A. (2008) A Cell-penetrating Helical Peptide as a Potential HIV-1 Inhibitor. J Miol Biol; 378: 565-80

Milstein O., Tseng S.Y., Starr T., Llodra J., Nans A., Liu M., Wild M.K., van der Merwe P.A., Stokes D.L., Reisner Y., Dustin M.L. Nanoscale increases in CD2-CD48-mediated intermembrane spacing decrease adhesion and reorganize the immunological synapse. J Biol Chem 2008 Dec 5; 283 (49): 34414-22

Tan D., Rice W.J., Sosa H. Structure of the Kinesin13 Ring Complex. Structure 2008 Nov 12; 16: 1732–1739

Edmund C. Schwartz, Alexander Shekhtman , Kaushik Dutta, Matthew R. Pratt, David Cowburn, Seth Darst and Tom W. Muir Autoregulation of a Group 1 Bacterial Sigma Factor Involves the Formation of Region 1.1-Induced Compacted Structure. Chemistry and Biology; 15: 1091-1103

Lee, YT; Dimitrova, YN; Schneider, G; Ridenour, WB; Bhattacharya, S; Soss, SE; Caprioli, RM; Filipek, A; Chazin, WJ Structure of the S100A6 complex with a fragment from the C-terminal domain of Siah-1 interacting protein: A novel mode for S100 protein target recognition. BIOCHEMISTRY 47 (41): 10921-10932

Pellecchia M, Bertini I, Cowburn D, Dalvit C, Giralt E, Jahnke W, James TL, Homans SW, eta al. Perspectives on NMR in drug discovery. Nat Rev Drug Discov 2008; 7: 738-745

Dutta, K; Cox, CJ; Basavappa, R; Pascal, SM (2008) N-15 relaxation studies of apo-Mts1: A dynamic S100 protein. BIOCHEMISTRY 22 Jul 2008; 47 (29): 7637-7647

Wagner, GW and Itin, B. Comment on "27AI. 47,49Ti. 31P. and 13C MlAS NMR Study of VX: GD and DD Reactions with Nanoosize Al03, Conventional Al03 and Ti02 and Aluminum and Titanium Metal J. Phys. Chem. C 218; 112: 9962

Wu CC, Rice WJ, Stokes DL. (2008) Structure of a copper pump suggests a regulatory role for its metal-binding domain. Structure; 16: 976-85

Owen GR, Acehan D, Derr KD, Rice WJ, Stokes DL. (2008) Cryoelectron tomography of isolated desmosomes. Biochem Soc Trans; 36: 173-9

2007 Valentine ER, Ferrage F, Massi F, Cowburn D, and Palmer AG. Joint Composite-Rotation Adiabatic-Sweep Isotope Filtration J. Biomol. NMR; 38: 11-22

Cowburn D. Moving parts: how the adaptor protein CRK is regulated, and regulates. Nat Struct Mol Biol; 14: 465-6

Stokes DL 'Desmosomes from a structural perspective. Curr Opin Cell Biol; 19: 565-71

Vanamee ES, Berriman J, Aggarwal AK. An EM view of the FokI synaptic complex by single particle analysis. J Mol Biol; 370: 207-12

Li Y, Brodsky B, Baum J. NMR shows hydrophobic interactions replace glycine packing in the triple helix at a natural break in the (Gly-X-Y)n repeat. J Biol Chem; 282: 22699-706

2007 Vink M, Derr K, Love J, Stokes DL, Ubarretxena-Belandia I. (2007) A high-throughput strategy to screen 2D crystallization trials of membrane proteins. J Struct Biol; 160: 295-304

Yakubovskaya E, Lukin M, Chen Z, Berriman J, Wall JS, Kobayashi R, Kisker C, Bogenhagen DF. The EM structure of human DNA polymerase gamma reveals a localized contact between the catalytic and accessory subunits. EMBO J.; 26: 4283-91

Devrim Acehan; Yang Xu; David L. Stokes; and Michael Schlame. Comparison of lymphoblast mitochondria from normal subjects and patients with Barth syndrome using electron microscopic tomography Lab Invest. 2007 January; 87 (1): 40–48

2006 Burz, D.S., Dutta, K., Cowburn, D., Shekhtman, A. (2006) Mapping structural interactions in proteins using NMR (STINT-NMR). Nature Methods; 3: 93-95

Burz, D.S., Dutta, K., Cowburn, D., Shekhtman, A. (2006) Mapping structural interactions in proteins using NMR (STINT-NMR). Nature Protocols; 1: 146-152

Mukherjee, M., Dutta, K., White, M.A., Cowburn, D., Fox, R.O. (2006) NMR solution structure and backbone dynamics of domain III of the E protein of tick-borne Langat flavivirus, suggests a potential site for molecular recognition. Protein Science; 15: 1342-1355

Ji, H., Shekhtman, A., McDonnell, J., Ghose, R., Cowburn D. (2006) NMR determination that an extended BH3 motif of pro-apoptotic BID is specifically bound to BCL-XL. Magnetic Res. Chem.; 44: 101-6

Ferrage, F., Pelupessey P., Cowburn D., Bodenhausen G. Intra-residue dipolar cross-relaxation rates between 13Cα and 13C' as a measure of internal dynamics in proteins by NMR Spectroscopy. J. Am. Chem. Soc.; 128: 11072-8

2005 Salmon, J.B., Dubrocq, C., Tabeling, P., Charier, S., Alcor, D., Jullien, L., Ferrage, F. (2005) An Approach To Extract Rate Constants from Reaction-Diffusion Dynamics in a Microchannel. Anal. Chem.; 77: 3417-3424

2006 Pomfret, A.J., Rice, W.J., Stokes, D.L. Application of the iterative helical real-space reconstruction method to large membranous tubular crystals of P-type ATPases. Journal of Structural Biology; 157: 106-116

Hinsen, K., Reuter, N., Navaza, J., Stokes, D.L., Lacapere, J.J. Normal mode-based fitting of atomic structure into electron density maps: Application to sarcoplasmic reticulum Ca-ATPase. Biophysical Journal; 88: 818-827

Wood, M.A., Meredith, D.O., Owen, G.R., Richards, R.G., Riehle, M.O. Utilizing atomic number contrast for FESEM imaging of colloidal nanotopography underlying biological cells. Nanotechnology; 16: 1433-1439

Rao, K.N., Kumaran, D., Seetharaman, J., Bonanno, J.B., Burley, S.K., Swaminathan, S. Crystal structure of trehalose-6-phosphate phosphatase-related protein: Biochemical and biological implications. Protein Science; 15: 1735-1744

Greig, S.L., Berriman, J.A., O'Brien, J.A., Taylor, J.A., Bellamy, A.R., Yeager, M.J., Mitra, A.K. Structural determinants of rotavirus subgroup specificity mapped by cryo-electron microscopy. Journal of Molecular Biology; 356: 209-221

Rice WJ, Kovalishin A, Stokes DL 'Role of metal-binding domains of the copper pump from Archaeoglobus fulgidus. Biochem Biophys Res Commun; 348: 124-131

Tang Y, Goger MJ, Raleigh DP 'NMR Characterization of a Peptide Model Provides Evidence for Significant Structure in the Unfolded State of the Villin Headpiece Helical Subdomain. Biochemistry 2006; 45: 6940-6946

2005 Stokes, D.L., F. Delavoie, W.J. Rice, P. Champeil, D.B. McIntosh, J.-J. Lacapere, 2005. Structural Studies of a Stabilized Phosphoenzyme Intermediate of Ca2+-ATPase. J. Biol. Chem.; 280: 18063-18072

2004 Mukherjee, M., Dutta, K., Pascal, S., Fox, R. Letter to the Editor: Backbone and side chain resonance assignments of domain III of the tick-borne Langat flavivirus envelope protein. Journal of Biomolecular NMR; 29: 535 - 536

Romanelli, A., Shekhtman, A., Cowburn, D., and Muir, T. W. (2004). Semisynthesis of a segmental isotopically labeled protein splicing precursor: NMR evidence for an unusual peptide bond at the N-extein-intein junction. Proc Natl Acad Sci U S A; 101: 6397-6402

Cowburn D, Shekhtman A, Xu R, Ottesen JJ, Muir TW. (2004) Segmental isotopic labeling for structural biological applications of NMR. Methods Mol Biol.; 278: 47-56

2003 Fushman, D., and Cowburn, D. (2003). Characterization of Inter-Domain Orientation in Solution using the NMR relaxation approach. In Biological Magnetic Resonance, R. N. Krishna, and L. J. Berliner, eds. (New York, Kluwer), pp. 53-77

Goger, M., McDonnell, J. M., and Cowburn, D. (2003). Using cryoprobes to decrease acquisition times of triple resonance experiments used for protein resonance assignments. Spectroscopy; 17: 161-167

Ottesen, J. J., Blaschke, U. K., Cowburn, D., and Muir, T. W. (2003). Segmental isotopic labeling: Prospects for a new tool to study the structure-function relationships in multidomain proteins. In Biological Magnetic Resonance, R. N. Krishna, and L. J. Berliner, eds. (New York, Kluwer), pp. 35-51

2003 He, W., Cowin, P., and Stokes, D. L. (2003). Untangling desmosomal knots with electron tomography. Science; 302: 109-113

Shekhtman, A., and Cowburn, D. (2002). A ubiquitin-interacting motif from Hrs binds to and occludes the ubiquitin surface necessary for polyubiquitination in monoubiquitinated proteins. Biochem Biophys Res Commun; 296: 1222-1227

Shekhtman, A., Ghose, R., Goger, M., and Cowburn, D. (2002). NMR structure determination and investigation using a reduced proton (REDPRO) labeling strategy for proteins. FEBS Lett; 524: 177-182

2001 Fushman, D., and Cowburn, D. (2001). Nuclear magnetic resonance relaxation in determination of residue-specific 15N chemical shift tensors in proteins in solution: protein dynamics, structure, and applications of transverse relaxation optimized spectroscopy. Methods Enzymol; 339: 109-126

Ghose, R., Shekhtman, A., Goger, M. J., Ji, H., and Cowburn, D. (2001). A novel, specific interaction involving the Csk SH3 domain and its natural ligand. Nat Struct Biol; 8: 998-1004

McDonnell, J. M., Calvert, R., Beavil, R. L., Beavil, A. J., Henry, A. J., Sutton, B. J., Gould, H. J., and Cowburn, D. (2001). The structure of the IgE Cε2 domain and its role in stabilizing the complex with its high-affinity receptor FcεRIα. Nat Struct Biol; 8: 437-441

Shekhtman, A., Ghose, R., Wang, D., Cole, P. A., and Cowburn, D. (2001). Novel mechanism of regulation of the non-receptor protein tyrosine kinase Csk: insights from NMR mapping studies and site-directed mutagenesis. J Mol Biol; 314: 129-138

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