Selected Core and Collaborative Publications

 

2003

 

Ahvazi, B., Boeshans, K.M., Idler, W., Baxa, Steinert, P.M.  Roles of Calcium Ions in the Activation and Activity of the Transglutaminase 3 Enzyme.  J. Biol. Chem. 278: 23834-23841, 2003.

 

Antipenko, A., Himanen, J.P., Van Leyen, K., Nardi-Dei, V., Lesniak, J.,  Barton, W.A., Rajashankar, K.R., Lu, M., Hoemme, C., Puschel, A.W., Nikolov, D.B.  Structure of the Semaphorin-3A Receptor-Binding Module.  Neuron 39: (4) 589-598, 2003.

 

Burling, F.T., Kniewel, R., Buglino, J.A., Chadha, T., Beckwith, A., Lima, C.D.  Structure of Escherichia Coli Uridine Phosphorylase at 2.0 A.  Acta Crystallogr. D Biol. Crystallogr. 59: 73-76, 2003.

 

Campbell, E.A., Tupy, J.L., Gruber, T.M., Wang, S., Sharp, M.M., Gross, C.A., Darst, S.A. Crystal Structure of Escherichia coli sE with the Cytoplasmic Domain of its Anti-s RseA.  Mol. Cell 11: 1067-1078, 2003.

 

Carrington, P.E.  Thesis – Part 1 – The Role of Nickel in Carcinogenesus, Methanogenesis and Transcritional Regulation.  Part 2 - An X-ray Absorption  Study of Pyrococcus Furiosus Superoxide Reductase. 2003.

 

Chance, M.R., Gupta, S., Sullivan, M., Toomey, J., Brenowitz, M.  Albert Einstein Center for Synchrotron Biosciences Beamline X28C: A National Resource Dedicated to Studying the Dynamics of Nucleic Acid and Protein Footprinting.  Biophysical Journal  84: 577A, 2003.

 

Dokken, K.M., Davis, L.C., Erickson, L.E., Wetzel, D.L., Reffner, J.A.  The Use of Infrared Microspectroscopy to Determine the Biotransformation of Benzotriazole by (Helianthus Annuus L.).  Proceedings of 38th Midwest Regional Meeting of the American Chemical Society, 2003.

 

Dong, J., Wan, Z., Popov, M., Carey, P.R., Weiss, M.A.  Insulin Assembly Damps Conformational Fluctuations: Raman Analysis of Amide I Linewidths in Native States and Fibrils.  J. Mol. Biol. 330: (2) 431-442, 2003.

 

Egdal, R.K., Hazell, A., Larsen, F.B., McKenzie, C.J., Scarrow, R.C.  A Dihydroxo-Bridged Fe(II)-Fe(III) Complex: A New Member of the Diiron Diamond Core Family.  J. Am. Chem. Soc. 125: 32-33, 2003.

 

Fabrega, C., Shen, V., Shuman, S., Lima, C.D.  Structure of an mRNA Capping Enzyme Bound to the Phosphorylated Carboxy-Terminal Domain of RNA Polymerase II.  Mol. Cell  11: (6) 1549-1561, 2003

 

Gao, X., Wen, X., Esser, L., Quinn, B., Yu, L., Yu, C-A., Xia, D.  Structural Basis for the Quinone Reduction in the bc1 Complex: a Comparative Analysis of Crystal Structures of Mitochondrial Cytochrome bc1 with Bound Substrate and Inhibitors at the Qi site. Biochemistry 42: 9067-9080, 2003.

 

Gogos, A., Mu, H., Bahna, F., Gomez, C.A., Shapiro, L.  Crystal Structure of YdcE Protein from Bacillus Subtilis.  Proteins 53: (2) 320-322, 2003.

 

Guan, J.Q., Vorobiev, S., Almo, S.C., Reisler, E., Chance, M.R. Structural Reorganization of Proteins Revealed by Radiolysis and Mass Spectrometry: G-Actin Solution Structure is Divalent Cation Dependent.  Biochemistry 42: 11992-12000, 2003.

 

Guan, J-Q., Almo, S.C., Chance, M.R.  Probing the Structure of Filamentous Actin by Using Synchrotron Protein Footprinting.  Biophysical Journal  84: 12A, 2003.

 

Guan, J-Q., Almo, S.C., Chance, M.R.  Structural Reorganization of Proteins Revealed by Radiolysis and Mass Spectrometry: Divalent Cation Dependent Structure of Monomeric and Filamentous Actin.   Mol. & Cellular Proteomics, 2.9: 25.3, 2003.

 

Guan, J-Q., Almo, S.C., Chance, M.R.  Structure of Actin Subunits of F-Actin in Solution Revealed by Chemical Probes and Mass Spectroscopy.  Proceedings of 51st ASMS Conference on Mass Spectrometry and Allied Topics, Abstract A030510, 2003.

 

Gupta, S., Baniecki, M.L., Mangel, W.F., Chance, M.R.  Structural Studies on the Interaction of the Adenovirus Proteinase (AVP) with its Cofactors Using Synchrotron Protein Footprinting.  Biophysical Journal  84: 37A, 2003.

 

Huang, R.Y., Miller, L.M., Carlson, C.S., Chance, M.R. Alterations of Bone Chemistry in Ovariectomized Monkeys Revealed by Synchrotron Infrared Micro-Spectroscopy.  Bone  33: 514-521, 2003.

 

Huang, Raymond, Ph.D. Theses. Bone Chemistry of Osteoporosis Revealed  by Infrared Microscopy. 2003.

 

Jain, D., Nickels, B.E., Sun, L., Hochschild, A., Darst, S.A.  Structure of a Ternary Transcription Activation Complex.  Mol. Cell 13: 45-53, 2004.

 

Kang, B-S., Cooper, D.R., Devedjiev, Y., Derewenda, U., Derewenda, Z. Molecular Roots of Degenerate Specificity in Syntenin's PDZ2 Domain: Reassessment of the PDZ Recognition Paradigm. Structure 11: 845-853, 2003.

 

Kiselar, J.G., Almo, S.C., Janmey, P.A., Chance, M.R.  Equilibrium and Time-Resolved Footprinting Approaches to Examine the Dynamics of Ca2+ Dependent Activation of Gelsolin.  Proceedings of 51st ASMS Conference on Mass Spectrometry and Allied Topics, Abstract A030537, 2003.

 

Kiselar, J.G., Janmey, P., Almo, S.C., Chance, M.R.  Visualizing Activation of Gelsolin Using Synchrotron Footprinting.  2003 National Synchrotron Light Source Activity Report.  September 3, 2003.

 

Kiselar, J.G., Janmey, P., Almo, S.C., Chance, M.R. Structural Analysis of Gelsolin Using Synchrotron Protein Footprinting.  Mol. & Cell Proteomics 2: 1120-1132, 2003.

 

Kiselar, J.G., Janmey, P.A., Almo, S.C., Chance, M.R.  Probing Conformational Changes and Interactions of Proteins and their Macromolecular Assemblies Using Hydroxyl Radical Mediated Protein Footprinting.  Mol. & Cellular Proteomics, 2.9: 25.4, 2003.

 

Kiselar, J.G., Janmey, P.A., Almo, S.C., Chance, M.R.  Visualizing the Ca2+ Dependent Activation of Gelsolin by Using Synchrotron Footprinting.  Proc. Nat. Acad. Sci. 100: 3942-3947, 2003.

 

Kleifeld, O., Shi, S., Zarivasch, R., Eisenstein, M., Sagi, I.  The Conserved Glu-60 in the Active Site of Thermoanaerobacter Brockii Alcohol Dehydrogenase is not Essential for Catalysis.  Protein Science 12: 468-479, 2003.

 

Lappi, S.E.  A Vibrational Analysis of the Exocyclic Amino Group of Adenine, Thesis (Ph.D.) North Carolina State University. 2003.

 

Larsson, A.M., Andersson, R., Stahlberg, J., Kenne, L., Jones, T.A.  Dextranase from Penicillium Minioluteum: Reaction Course, Crystal Structure, and Product Complex.  Structure 11: (9) 1111-1121, 2003.

 

Lilic, M., Galkin, V.E., Orlova, A., VanLoock, M.S., Egelman, E.H., Stebbins,  C.E.  Salmonella SipA Polymerizes Actin by Stapling Filaments with Non-Globular Protein Arms.  Science 301: 1918-1921, 2003.

 

Liu, R., Guan, J.Q., Zak, O., Aisen, P., Chance, M.R., Structural Reorganization of Transferrin C-Lobe and Transferrin Receptor Upon Complex Formation: C-Lobe Binds to the Receptor Helical Domain. Biochemistry 42: 12447–12454, 2003.

 

Liu, R., Guan, J-Q., Aisen, P., Zak, O., Chance, M.R.  Synchrotron Hydroxyl Radical Footprinting and Mass Spectrometry Method to Probe the Surface of Human Transferrin C-Lobe.  Biophysical Journal  84: 36A, 2003.

 

Liu, R., Guan, J-Q., Zak, O., Aisen, P., Chance, M.R.  Structural Reorganization of Transferrin C-Lobe and Transferrin Receptor Upon Complex Formation: C-Lobe Binds to the Receptor Helical Domain.  Mol. & Cellular Proteomics, 2.9 supplement  45.1, 2003.

 

Marinkovic, N.S., Sullivan, M., Huang, R., Chance, M.R.  Beamline U2B: A National Resource Dedicated to Studying Infrared Spectroscopy of Biomolecules.  Biophysical Journal 84: 467A, 2003.

 

Mossessova, E., Bickford, L.C., Goldberg, J.  SNARE Selectivity of the COPII Coat.  Cell 114: (4) 483-495, 2003.

 

Maroney, M.J., Bryngelson, P.A., Pinkham, J.L., DeCourcy, P.R., Arobo, S.E., NiSOD: A New Mechanism for Removing Superoxide, or a Strep. Tease.  J. Inorg. Biochem. 96: 46, 2003.

 

Padyana, A.K., Burley, S.K.  Crystal Structure of Shikimate 5-Dehydrogenase (SDH) Bound to NADP: Insights into Function and Evolution.  Structure 11: (8) 1005-1013, 2003.

Ramasamy, V., Ramakrishnan, B., Boeggeman, E., Qasba, P. The Role of   Tryptophan 314 in the Conformational Changes of beta-1,4-galactosyltransferase-1.  J. Mol. Biol. 331: 1065-1076, 2003.

 

Rangan, P., Masquida, B., Westhof, E., Woodson, S.A.  Assembly of Core Helices and Rapid Tertiary Folding of a Small Bacterial Group I Ribozyme.  Proc. Nat’l. Acad. Sci. USA 100: (4) 1574-1579, 2003.

 

Rosenblum, G., Meroueh, O.S., Kleifeld, O., Brown, S., Singson, S.P., Fridman, R., Mobashery, S., Sagi, I.  Structural Basis for Potent Slow-Binding Inhibition of Human Matrix Metalloproteinase-2 (MMP-2).  Journal of Biological Chemistry 278: 27009-27015, 2003.

 

Sasaki, K., Mo, Y., Wang, J.X., Balasubramanian, M., Uribe, F., McBreen, J.,  Adzic, R.R. Pt Submonolayers on Metal Nanoparticles - Novel Electrocatalysts for H2 Oxidation and Oxygen Reduction.  Electrochim. Acta 48: 3841, 2003.

 

Scheuring-Vanamee, E., Hsieh, P-C., Zhu, Z.,Yates, D., Garman, E., Xu, S-Y., Aggarwal, A.K.  Glucocorticoid Receptor-like Zn(Cys) Motifs in Bsll Restriction Endonuclease.  J. Mol. Biol. 334: 595-603, 2003.

 

Shearer, J., Fitch, S.B., Kaminsky, W., Benedict, J., Scarrow, R.C., Kovacs, J.A.  How Does Cyanide Inhibit Superoxide Reductase?  Insight from Synthetic FeIIIN4S Model Complexes.  Proc. Natl. Acad. Sci. U.S.A. 100: 3671-3676, 2003.

 

Stavridi, E.S., Harris, K.G., Huyen, Y., Bothos, J., Verwoerd, P.M., Stayrook, S.E., Pavletich, N.P., Jeffrey, P.D., Luca, F.C.  Crystal Structure of a Human          Mob1 Protein: Toward Understanding Mob-Regulated Cell Cycle Pathways.  Structure (Camb) 11: 1163-70, 2003.

 

Su, L.J., Brenowitz, M., Pyle, A.M.  An Alternative Route for the Folding of Large RNAs: Apparent Two-state Folding by a Group II Intron Ribozyme. Journal of Molecular Biology 334: 639 – 652, 2003.

 

Sun, J.P., Wu, L., Fedorov, A.A., Almo, S.C., Zhang, Z.Y.  Crystal Structure of the Yersinia Protein-Tyrosine Phosphatase YopH Complexed with a Specific Small Molecule Inhibitor.  J. Biol. Chem. 278: 33392, 2003.

 

Taylor, C.M., Watton, S.P., Bryngelson, P.A., Maroney, M.J.  Inner Sphere Complexation of Cobalt(II) 2,9,-Dimethyl-1,10-Phenanthroline ([Co(neo)]2+) with Commercial and Sol-gel Derived Silica Gel Surfaces. Inorg. Chem. 42: 312-320, 2003.

 

Thirumuruhan, R.A., Almo, S., Bresnick, A., Huang, R., Nagajyothi, F., Dodatko, T., Sharp, A., Patskovsky, Y., Chance, M.R., Burley, S.  Progress Report from the New York Structural Genomics Research Consortium.  Biophysical Journal  84: 175A, 2003.

 

Tobin, D.A., Pickett, J.S., Hartman, H.L., Fierke, C.A., Penner-Hahn, J.E.  Structural Characterization of the Zinc Site in Protein Farnesyltransferase.  J. Am. Chem. Soc., 125: 9962-9969, 2003.

 

Tobin, Daniel, Ph.D. Theses.  XAS Investigation of Zn Metalloproteins and Enzymes.  Department of Chemistry, University of Michigan, September 2003.

 

Wan, Z.L., Xu, B., Chu, Y.C., Katsoyannis, P.G., Weiss, M.A.  Crystal Structure of Allo-Ile(A2)-Insulin, an Active Chiral Analogue: Implications for the Mechanism of Receptor Binding.  Biochemistry 42: (44) 12770-12783, 2003.

 

Xu, G., Takamoto, K., Chance, M.R.  New Probes for Exploring Protein-Protein Interactions by Footprinting: Radiolytic Modification of Basic Amino Acid Residues in Peptides.  Proceedings of 51st ASMS Conference on Mass Spectrometry and Allied Topics, Abstract A030399, 2003.

 

Xu, G., Takamoto, K., Guan, J-Q., Chance, M.R.  New Amino Acid Probes for Synchrotron Footprinting of Proteins.  Biophysical Journal  84: 36A, 2003.

 

Xu, G., Takamoto, K.G., Chance, M.R. Radiolytic Modification of Basic Amino Acids: New Probes for Protein Footprinting.  Anal. Chem. 75: 6995-7007, 2003.