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Below is a partial list of publications in which SVEDBERG was used (140 total), in reverse order by year. If you know of others, please send the citation to John Philo.


Tarus, B., Chevalier, C., Richard, C. A., Delmas, B., Di, P. C., and Slama-Schwok, A. (2012). Molecular dynamics studies of the nucleoprotein of influenza A virus: role of the protein flexibility in RNA binding. PLoS One 7, e30038 [Full text]


Tarus, B., Bakowiez, O., Chenavas, S., Duchemin, L., Estrozi, L. F., Bourdieu, C., Lejal, N., Bernard, J., Moudjou, M., Chevalier, C., Delmas, B., Ruigrok, R. W., Di, P. C., and Slama-Schwok, A. (2011). Oligomerization paths of the nucleoprotein of influenza A virus. Biochimie, epub ahead of print. [Abstract]

Credali, A., az-Quintana, A., Garcia-Calderon, M., De la Rosa, M. A., Marquez, A. J., and Vega, J. M. (2011). Structural analysis of K+ dependence in L-asparaginases from Lotus japonicus. Planta 234, 109-122. [Abstract]


Lucas, M., Gonzalez-Perez, B., Cabezas, M., Moncalian, G., Rivas, G., and de la, C. F. (2010). Relaxase DNA binding and cleavage are two distinguishable steps in conjugative DNA processing that involve different sequence elements of the nic site. J. Biol. Chem. 285, 8918-8926. [Full text]

Mittal, V., Volkel, A., and Colfen, H. (2010). Analytical ultracentrifugation of model nanoparticles: comparison of different analysis methods. Macromol. Biosci. 10, 754-762. [Abstract]


Pettigrew, D. W. (2009). Oligomeric interactions provide alternatives to direct steric modes of control of sugar kinase/actin/hsp70 superfamily functions by heterotropic allosteric effectors: inhibition of E. coli glycerol kinase. Arch Biochem. Biophys. 492, 29-39. [Abstract]

Tran, T. L., Castagne, N., Dubosclard, V., Noinville, S., Koch, E., Moudjou, M., Henry, C., Bernard, J., Yeo, R. P., and Eleouet, J. F. (2009). The respiratory syncytial virus M2-1 protein forms tetramers and interacts with RNA and P in a competitive manner. J. Virol. 83, 6363-6374. [Abstract]

Hammond, J. A., Rambo, R. P., Filbin, M. E., and Kieft, J. S. (2009). Comparison and functional implications of the 3D architectures of viral tRNA-like structures. RNA 15, 294-307. [Abstract]

Henzl, M. T. (2009). Characterization of parvalbumin and polcalcin divalent ion binding by isothermal titration calorimetry. Methods Enzymol. 455, 259-297. [Abstract]


Shen, K., Sergeant, S., Hantgan, R. R., McPhail, L. C., and Horita, D. A. (2008). Mutations in the PX-SH3(A) linker of p47(Phox) decouple PI(3,4)P-2 binding from NADPH oxidase activation. Biochemistry 47, 8855-8865. [Abstract]

Hong, M., Fitzgerald, M. X., Harper, S., Luo, C., Speicher, D. W., and Marmorstein, R. (2008). Structural basis for dimerization in DNA recognition by Gal4. Structure 16, 1019-1026. [Abstract]

Nair, N., Kim, W. J., Braatz, R. D., and Strano, M. S. (2008). Dynamics of surfactant-suspended single-walled carbon nanotubes in a centrifugal field. Langmuir 24, 1790-1795. [Abstract]

Kish-Trier, E., Briere, L. K., Dunn, S. D., and Wilkens, S. (2008). The stator complex of the A1A0-ATP synthase--structural characterization of the E and H subunits. J. Mol. Biol. 375, 673-685. [Abstract]


Kieft, J. S., Costantino, D. A., Filbin, M. E., Hammond, J., and Pfingsten, J. S. (2007). Structural methods for studying IRES function. Methods Enzymol. 430, 333-371. [Abstract]

Saderholm, M. J., Lemon, S. M., and Erickson, B. W. (2007). Characterization of deltoid, a chimeric protein containing the oligomerization site of hepatitis delta antigen. Biopolymers 88, 764-773. [Abstract]

Hartshorne, R. S., Jepson, B. N., Clarke, T. A., Field, S. J., Fredrickson, J., Zachara, J., Shi, L., Butt, J. N., and Richardson, D. J. (2007). Characterization of Shewanella oneidensis MtrC: a cell-surface decaheme cytochrome involved in respiratory electron transport to extracellular electron acceptors. J. Biol. Inorg. Chem. 12, 1083-1094. [Abstract]

Ross, D. E., Ruebush, S. S., Brantley, S. L., Hartshorne, R. S., Clarke, T. A., Richardson, D. J., and Tien, M. (2007). Characterization of Protein-Protein Interactions Involved in Iron Reduction by Shewanella oneidensis MR-1. Applied and Environmental Microbiology 73, 5797-5808. [Abstract]

Pfingsten, J. S., Costantino, D. A., and Kieft, J. S. (2007). Conservation and diversity among the three-dimensional folds of the Dicistroviridae intergenic region IRESes. J. Mol. Biol. 370, 856-869. [Abstract]

Burton, R. A., Tsurupa, G., Hantgan, R. R., Tjandra, N., and Medved, L. (2007). NMR solution structure, stability, and interaction of the recombinant bovine fibrinogen alphaC-domain fragment. Biochemistry 46, 8550-8560. [Abstract]

Dey, S., Hu, Z., Xu, X. L., Sacchettini, J. C., and Grant, G. A. (2007). The effect of hinge mutations on effector binding and domain rotation in Escherichia coli D-3-phosphoglycerate dehydrogenase. J. Biol. Chem. 282, 18418-18426. [Abstract]

Buey, R. M., Monterroso, B., Menendez, M., Diakun, G., Chacon, P., Hermoso, J. A., and Diaz, J. F. (2007). Insights into molecular plasticity of choline binding proteins (pneumococcal surface proteins) by SAXS. J. Mol. Biol. 365, 411-424. [Abstract]


Llorca, O., Betti, M., Gonzalez, J. M., Valencia, A., Marquez, A. J., and Valpuesta, J. M. (2006). The three-dimensional structure of an eukaryotic glutamine synthetase: functional implications of its oligomeric structure. J. Struct. Biol. 156, 469-479. [Abstract]

Burke, P.L. (2006). The oligomeric state of archeal fibrillarin: implications in the organization and function of essential box C/D sRNP particles. Master's thesis, Univ. of Lethbridge [PDF]

Mok, Y. F. and Howlett, G. J. (2006). Sedimentation velocity analysis of amyloid oligomers and fibrils. Methods Enzymol. 413, 199-217. [Abstract]

Mach, H., Volkin, D. B., Troutman, R. D., Wang, B., Luo, Z., Jansen, K. U., and Shi, L. (2006). Disassembly and reassembly of yeast-derived recombinant human papillomavirus virus-like particles (HPV VLPs). J. Pharm. Sci. 95, 2195-2206. [Abstract]

Hantgan, R. R., Stahle, M. C., Connor, J. H., Horita, D. A., Rocco, M., McLane, M. A., Yakovlev, S., and Medved, L. (2006). Integrin αII3:ligand interactions are linked to binding-site remodeling. Protein Sci. 15, 1893-1906. [Abstract]

de Carvalho, L. P. and Blanchard, J. S. (2006). Kinetic and chemical mechanism of alpha-isopropylmalate synthase from Mycobacterium tuberculosis. Biochemistry 45, 8988-8999. [Abstract]


Perez-Ramirez, B. and Steckert, J. J. (2005). Probing reversible self-association of therapeutic proteins by sedimentation velocity in the analytical ultracentrifuge. Methods Mol Biol 308, 301-318. [Abstract]

Costantino, D. and Kieft, J. S. (2005). A preformed compact ribosome-binding domain in the cricket paralysis-like virus IRES RNAs. RNA 11, 332-343. [PDF]

Schultes, E. A., Spasic, A., Mohanty, U., and Bartel, D. P. (2005). Compact and ordered collapse of randomly generated RNA sequences. Nat. Struct. Mol. Biol. 12, 1130-1136. [Abstract]

Monterroso, B., Lopez-Zumel, C., Garcia, J. L., Saiz, J. L., Garcia, P., Campillo, N. E., and Menendez, M. (2005). Unravelling the structure of the pneumococcal autolytic lysozyme. Biochem. J. 391, 41-49. [PDF]

Wang, L., Lashuel, H. A., and Colon, W. (2005). From hexamer to amyloid: marginal stability of apolipoprotein SAA2.2 leads to in vitro fibril formation at physiological temperature. Amyloid 12, 139-148. [Abstract]

Bonaventura, C., Godette, G., Stevens, R., Brenowitz, M., and Henkens, R. (2005). Overproduction of alpha chains provides a proton-insensitive component to the bluefish hemoglobin system. J. Biol. Chem. 280, 40509-40514. [PDF]


Nakagawa, T., Futai, K., Lashuel, H. A., Lo, I., Okamoto, K., Walz, T., Hayashi, Y., and Sheng, M. (2004). Quaternary structure, protein dynamics, and synaptic function of SAP97 controlled by L27 domain interactions. Neuron 44, 453-467. [Abstract]

Edmondson, S. P., Kahsai, M. A., Gupta, R., and Shriver, J. W. (2004). Characterization of Sac10a, a hyperthermophile DNA-binding protein from Sulfolobus acidocaldarius. Biochemistry 43, 13026-13036. [Abstract]

de Antonio, C., Farias, M. E., de Lacoba, M. G., and Espinosa, M. (2004). Features of the plasmid pMV158-encoded MobM, a protein involved in its mobilization. J. Mol. Biol. 335, 733-743. [Abstract]

Hantgan, R. R., Stahle, M. C., Connor, J. H., Lyles, D. S., Horita, D. A., Rocco, M., Nagaswami, C., Weisel, J. W., and McLane, M. A. (2004). The disintegrin echistatin stabilizes integrin alphaIIbbeta3's open conformation and promotes its oligomerization. J. Mol. Biol. 342, 1625-1636. [Abstract]

Zhang, R. and Somasundaran, P. (2004). Abnormal micellar growth in sugar-based and ethoxylated nonionic surfactants and their mixtures in dilute regimes using analytical ultracentrifugation. Langmuir 20, 8552-8558. [Abstract]

Wang, Y., Coulombe, R., Cameron, D. R., Thauvette, L., Massariol, M. J., Amon, L. M., Fink, D., Titolo, S., Welchner, E., Yoakim, C., Archambault, J., and White, P. W. (2004). Crystal structure of the E2 transactivation domain of human papillomavirus type 11 bound to a protein interaction inhibitor. J. Biol. Chem. 279, 6976-6985. [PDF]

Sontag, C. A., Stafford, W. F., and Correia, J. J. (2004). A comparison of weight average and direct boundary fitting of sedimentation velocity data for indefinite polymerizing systems. Biophys. Chem. 108, 215-230. [Abstract]

Ghirlando, R., Litt, M. D., Prioleau, M. N., Recillas-Targa, F., and Felsenfeld, G. (2004). Physical properties of a genomic condensed chromatin fragment. J. Mol. Biol. 336, 597-605. [Abstract]

Cochran, J. C., Sontag, C. A., Maliga, Z., Kapoor, T. M., Correia, J. J., and Gilbert, S. P. (2004). Mechanistic analysis of the mitotic kinesin Eg5. J. Biol. Chem. 279, 38861-38870. [PDF]

Doran, J. D., Liu, X., Taslimi, P., Saadat, A., and Fox, T. (2004) New insights into structure-function relationships of Rho-kinase. A thermodynamic and hydrodynamic study of the dimer to monomer transition and its kinetic implications. Biochem. J. 384, 255-262. [Abstract]

Schoeffler, A. J., Joubert, A. M., Peng, F. G., Khan, F. H., Liu, C. C., and LiCata, V. J. (2004). Extreme free energy of stabilization of taq DNA polymerase. Proteins 54, 616-621. [Abstract]

Jobstl, E., O'Connell, J., Fairclough, J. P., and Williamson, M. P. (2004). Molecular model for astringency produced by polyphenol/protein interactions. Biomacromolecules. 5, 942-949. [Abstract] [PDF]

Philo, J. S., Yang, T. H., and LaBarre, M. (2004). Re-examining the oligomerization state of macrophage migration inhibitory factor (MIF) in solution. Biophys. Chem. 108, 77-87. [Abstract]


Sanchez-Perez, G. F., Gasset, M., Calvete, J. J., and Pajares, M. A. (2003). Role of an intrasubunit disulfide in the association state of the cytosolic homo-oligomer methionine adenosyltransferase. J. Biol. Chem. 278, 7285-7293. [PDF]

Loiselle, F. B., Jaschke, P., and Casey, J. R. (2003). Structural and functional characterization of the human NBC3 sodium/bicarbonate co-transporter carboxyl-terminal cytoplasmic domain. Mol. Membr. Biol. 20, 307-317. [Abstract]

Miller, D. L. and Schildbach, J. F. (2003). Evidence for a monomeric intermediate in the reversible unfolding of F factor TraM. J. Biol. Chem. 278, 10400-10407. [PDF]

Charles, C. H., Luo, G. X., Kohlstaedt, L. A., Morantte, I. G., Gorfain, E., Cao, L., Williams, J. H., and Fang, F. (2003). Prevention of human rhinovirus infection by multivalent fab molecules directed against ICAM-1. Antimicrob. Agents Chemother. 47, 1503-1508. [PDF]

Min, T., Kasahara, H., Bedgar, D. L., Youn, B., Lawrence, P. K., Gang, D. R., Halls, S. C., Park, H., Hilsenbeck, J. L., Davin, L. B., Lewis, N. G., and Kang, C. (2003). Crystal structures of pinoresinol-lariciresinol and phenylcoumaran benzylic ether reductases and their relationship to isoflavone reductases. J. Biol. Chem. 278, 50714-50723. [PDF]

Huecas, S. and Andreu, J. M. (2003). Energetics of the cooperative assembly of cell division protein FtsZ and the nucleotide hydrolysis switch. J. Biol. Chem. 278, 46146-46154. [PDF]

Bernocco, S., Steiglitz, B. M., Svergun, D. I., Petoukhov, M. V., Ruggiero, F., Ricard-Blum, S., Ebel, C., Geourjon, C., Deleage, G., Font, B., Eichenberger, D., Greenspan, D. S., and Hulmes, D. J. (2003). Low resolution structure determination shows procollagen C-proteinase enhancer to be an elongated multidomain glycoprotein. J. Biol. Chem. 278, 7199-7205. [PDF]

Su, L. J., Brenowitz, M., and Pyle, A. M. (2003). An alternative route for the folding of large RNAs: apparent two-state folding by a group II intron ribozyme. J. Mol. Biol. 334, 639-652. [Abstract]

Srinivasan, R., Jones, E. M., Liu, K., Ghiso, J., Marchant, R. E., and Zagorski, M. G. (2003). pH-dependent amyloid and protofibril formation by the ABri peptide of familial British dementia. J. Mol. Biol. 333, 1003-1023. [Abstract]

Myszka, D. G., Abdiche, Y. N., Arisaka, F., Byron, O., Eisenstein, E., Hensley, P., Thomson, J. A., Lombardo, C. R., Schwarz, F., Stafford, W., and Doyle, M. L. (2003). The ABRF-MIRG'02 study: assembly state, thermodynamic, and kinetic analysis of an enzyme/inhibitor interaction. J. Biomol. Tech. 14, 247-269. [Abstract] [Full Text]

Joubert, A. M., Byrd, A. S., and LiCata, V. J. (2003). Global conformations, hydrodynamics, and X-ray scattering properties of Taq and Escherichia coli DNA polymerases in solution. J. Biol. Chem. 278, 25341-25347. [PDF]

Yokoyama, K., Ejima, D., Kita, Y., Philo, J. S., and Arakawa, T. (2003). Structure of folding intermediates at pH 4.0 and native state of microbial transglutaminase. Biosci. Biotechnol. Biochem. 67, 291-294. [Abstract]

Hantgan, R. R., Lyles, D. S., Mallett, T. C., Rocco, M., Nagaswami, C., and Weisel, J. W. (2003). Ligand binding promotes the entropy-driven oligomerization of integrin αIIbβ3. J. Biol. Chem. 278, 3417-3426. [Abstract] [PDF]

Dowd, T. L., Rosen, J. F., Li, L., and Gundberg, C. M. (2003). The three-dimensional structure of bovine calcium ion-bound osteocalcin using 1H NMR spectroscopy. Biochemistry 42, 7769-7779. [Abstract]

Simmons, D. A., Dunn, S. D., and Konermann, L. (2003). Conformational dynamics of partially denatured myoglobin studied by time-resolved electrospray mass spectrometry with online hydrogen-deuterium exchange. Biochemistry 42, 5896-5905. [Abstract]


Takamoto, K., He, Q., Morris, S., Chance, M. R., and Brenowitz, M. (2002). Monovalent cations mediate formation of native tertiary structure of the Tetrahymena thermophila ribozyme. Nat. Struct. Biol. 9, 928-933. [Abstract]

Del Rizzo, P. A., Bi, Y., Dunn, S. D., and Shilton, B. H. (2002). The "second stalk" of Escherichia coli ATP synthase: structure of the isolated dimerization domain. Biochemistry 41, 6875-6884. [Abstract]

Hantgan, R. R., Stahle, M. C., Jerome, W. G., Nagaswami, C., and Weisel, J. W. (2002). Tirofiban blocks platelet adhesion to fibrin with minimal perturbation of GpIIb/IIIa structure. Thromb. Haemost. 87, 910-917. [Abstract]

Halls, S. C. and Lewis, N. G. (2002). Secondary and quaternary structures of the (+)-pinoresinol-forming dirigent protein. Biochemistry 41, 9455-9461. [Abstract]

Pawlyk, A. C. and Pettigrew, D. W. (2002). Transplanting allosteric control of enzyme activity by protein-protein interactions: coupling a regulatory site to the conserved catalytic core. Proc. Natl. Acad. Sci. U. S. A. 99, 11115-11120. [PDF]

Hernandez-Alcantara, G., Garza-Ramos, G., Hernandez, G. M., Gomez-Puyou, A., and Perez-Montfort, R. (2002). Catalysis and stability of triosephosphate isomerase from Trypanosoma brucei with different residues at position 14 of the dimer interface. Characterization of a catalytically competent monomeric enzyme. Biochemistry 41, 4230-4238. [Abstract]

Gasset, M., Alfonso, C., Neira, J. L., Rivas, G., and Pajares, M. A. (2002). Equilibrium unfolding studies of the rat liver methionine adenosyltransferase III, a dimeric enzyme with intersubunit active sites. Biochem. J. 361, 307-315. [PDF]

Gonzalez, B., Pajares, M. A., Too, H. P., Garrido, F., Blundell, T. L., and Sanz-Aparicio, J. (2002). Crystallization and preliminary X-ray study of recombinant betaine-homocysteine S-methyltransferase from rat liver. Acta Crystallogr. D. Biol. Crystallogr. 58, 1507-1510. [Abstract]

Wang, L., Lashuel, H. A., Walz, T., and Colon, W. (2002). Murine apolipoprotein serum amyloid A in solution forms a hexamer containing a central channel. Proc. Natl. Acad. Sci. U. S. A. 99, 15947-15952. [PDF]

Sontag, C. A., Stafford, W. F., and Correia, J. J. (2004). A comparison of weight average and direct boundary fitting of sedimentation velocity data for indefinite polymerizing systems. Biophys. Chem. 108, 215-230. [Abstract]

Bennett, M. J., Huey-Tubman, K. E., Herr, A. B., West, A. P., Jr., Ross, S. A., and Bjorkman, P. J. (2002). A linear lattice model for polyglutamine in CAG-expansion diseases. Proc. Natl. Acad. Sci. U. S. A. 99, 11634-11639. [PDF]

Lashuel, H. A., Hartley, D. M., Balakhaneh, D., Aggarwal, A., Teichberg, S., and Callaway, D. J. (2002). New class of inhibitors of amyloid-beta fibril formation. Implications for the mechanism of pathogenesis in Alzheimer's disease. J. Biol. Chem. 277, 42881-42890. [PDF]

Errington, N., Mistry, P., and Rowe, A. J. (2002). Protein hydration varies with protein crowding and with applied pressure: a sedimentation velocity study. Progr. Colloid Polym. Sci. 119, 58-63. [Abstract]

Qin, B. Y., Lam, S. S., Correia, J. J., and Lin, K. (2002). Smad3 allostery links TGF-beta receptor kinase activation to transcriptional control. Genes Dev. 16, 1950-1963. [PDF]

Wood, Z. A., Poole, L. B., Hantgan, R. R., and Karplus, P. A. (2002). Dimers to doughnuts: redox-sensitive oligomerization of 2-cysteine peroxiredoxins. Biochemistry 41, 5493-5504. [Abstract]

Lashuel, H. A., Petre, B. M., Wall, J., Simon, M., Nowak, R. J., Walz, T., and Lansbury, P. T., Jr. (2002). Alpha-synuclein, especially the Parkinson's disease-associated mutants, forms pore-like annular and tubular protofibrils. J. Mol. Biol. 322, 1089-1102. [Abstract]

C. Garnier, P. Barbier, F. Devred, G. Rivas, and V. Peyrot (2002). Hydrodynamic properties and quaternary structure of the 90 kDa heat-shock protein: Effects of divalent cations. Biochemistry 41 (39):11770-11778. [Abstract]

Bibert, S., Jaquinod, M., Concord, E., Ebel, C., Hewat, E., Vanbelle, C., Legrand, P., Weidenhaupt, M., Vernet, T., Gulino-Debrac, D. (2002). Synergy between extracellular modules of vascular endothelial cadherin promotes homotypic hexameric interactions. J. Biol. Chem. 277, 12790-12801. [Abstract] [Full Text]

Lapouge, K., Smith, S. J. M., Groemping, Y., Rittinger, K. (2002). Architecture of the p40-p47-p67phox complex in the resting state of the NADPH oxidase. A Central role for p67phox. J. Biol. Chem. 277, 10121-10128. [Abstract] [Full Text]

Li, T., Yamane, H., Arakawa, T., Narhi, L. O., and Philo, J. (2002). Effect of the intermolecular disulfide bond on the conformation and stability of glial cell line-derived neurotrophic factor. Protein Eng 15, 59-64. [Abstract] [Full Text]

Schuck, P., Perugini, M. A., Gonzales, N. R., Howlett, G. J., and Schubert, D. (2002). Size-distribution analysis of proteins by analytical ultracentrifugation: Strategies and application to model systems. Biophys. J. 82, 1096-1111. [Abstract] [Full Text]

Patel, V. B. and Cunningham, C. C. (2002). Altered hepatic mitochondrial ribosome structure following chronic ethanol consumption. Arch. Biochem. Biophys. 398, 41-50. [Abstract]


Hood, W. F., Feng, Y. G., Schilling, R. J., Gokarn, Y., Jarvis, C., Remsen, E. E., Shieh, J. J., Joy, W., Klein, B. K., Polazzi, J. O., Welply, J. K., McKearn, J. P., and Monahan, J. B. (2001). Modulation of the binding affinity of myelopoietins for the interleukin-3 receptor by the granulocyte colony-stimulating factor receptor agonist. Biochemistry 40, 13598-13606. [Abstract]

Weisel, J. W., Nagaswami, C., Woodhead, J. L., Higazi, A. A., Cain, W. J., Marcovina, S. M., Koschinsky, M. L., Cines, D. B., and Bdeir, K. (2001). The structure of lipoprotein(a) and ligand-induced conformational changes. Biochemistry 40, 10424-10435. [Abstract]

Pawlyk, A. C. and Pettigrew, D. W. (2001). Subcloning, expression, purification, and characterization of Haemophilus influenzae glycerol kinase. Protein Expr. Purif. 22, 52-59. [Abstract]

Dunn, S. D., Kellner, E., and Lill, H. (2001). Specific heterodimer formation by the cytoplasmic domains of the b and b' subunits of cyanobacterial ATP synthase. Biochemistry 40, 187-192. [Abstract]

Patel, V. B., Cunningham, C. C., and Hantgan, R. R. (2001). Physiochemical properties of rat liver mitochondrial ribosomes. J. Biol. Chem. 276, 6739-6746. [Abstract]

Lozano, R. M., Redondo-Horcajo, M., Jimenez, M. A., Zilberberg, L., Cuevas, P., Bikfalvi, A., Rico, M., and Gimenez-Gallego, G. (2001). Solution structure and interaction with basic and acidic fibroblast growth factor of a 3-kDa human platelet factor-4 fragment with antiangiogenic activity. J. Biol. Chem. 276, 35723-35734. [Abstract] [Full Text]

White, P. W., Pelletier, A., Brault, K., Titolo, S., Welchner, E., Thauvette, L., Fazekas, M., Cordingley, M. G., and Archambault, J. (2001). Characterization of recombinant HPV6 and 11 E1 helicases: effect of ATP on the interaction of E1 with E2 and mapping of a minimal helicase domain. J. Biol. Chem. 276, 22426-22438. [Abstract] [Full Text]

Diaz, J. F., Kralicek, A., Mingorance, J., Palacios, J. M., Vicente, M., and Andreu, J. M. (2001). Activation of cell division protein FtsZ. Control of switch loop T3 conformation by the nucleotide gamma-phosphate. J. Biol. Chem. 276, 17307-17315. [Abstract] [Full Text]  

Arakawa, T., Philo, J. S., and Kita, Y. (2001). Kinetic and thermodynamic analysis of thermal unfolding of recombinant erythropoietin. Biosci. Biotechnol. Biochem. 65, 1321-1327. [Abstract] [Full Text]

Carrasco, B., de la Torre, J. G., Davis, K. G., Jones, S., Athwal, D., Walters, C., Burton, D. R., and Harding, S. E. (2001). Crystallohydrodynamics for solving the hydration problem for multi-domain proteins: open physiological conformations for human IgG. Biophys. Chem. 93, 181-196. [Abstract] [Full Text]

Zweifel, M. E. and Barrick, D. (2001). Studies of the ankyrin repeats of the Drosophila melanogaster Notch receptor. 1. Solution conformational and hydrodynamic properties. Biochemistry 40:14344-14356. [Abstract]

Correia, J. J., Chacko, B. M., Lam, S. S., and Lin, K. (2001). Sedimentation studies reveal a direct role of phosphorylation in Smad3:Smad4 homo- and hetero-trimerization. Biochemistry 40: 1473-1482. [PDF]

Holtman, C. K., Pawlyk, A. C., Meadow, N. D., and Pettigrew, D. W. (2001). Reverse genetics of Escherichia coli glycerol kinase allosteric regulation and glucose control of glycerol utilization in vivo. J. Bacteriol. 183, 3336-3344. [Abstract] [Full Text]

Feil, I. K., Malfois, M., Hendle, J., van Der, Z. H., and Svergun, D. I. (2001). A novel quaternary structure of the dimeric alpha-crystallin domain with chaperone-like activity. J. Biol. Chem. 276, 12024-12029. [Abstract] [Full Text]

Toonkool, P., Regan, D. G., Kuchel, P. W., Morris, M. B., and Weiss, A. S. (2001). Thermodynamic and hydrodynamic properties of human tropoelastin - Analytical ultracentrifuge and pulsed field-gradient spin-echo NMR studies. J. Biol. Chem. 276, 28042-28050. [Abstract]

Legrand, P., Bibert, S., Jaquinod, M., Ebel, C., Hewat, E., Vincent, F., Vanbelle, C., Concord, E., Vernet, T., and Gulino, D. (2001). Self-assembly of the vascular endothelial cadherin ectodomain in a Ca2+-dependent hexameric structure. J. Biol. Chem. 276, 3581-3588. [Abstract] [Full Text]

Tokunaga, M., Shiraishi, Y., Odachi, M., Mizukami, M., Tokunaga, H., Philo, J. S., Arakawa, T., Ishibashi, M., Tanaka, R., and Takagi, H. (2001). Molecular cloning of groESL locus, and purification and characterization of chaperonins, GroEL and GroES, from Bacillus brevis. Biosci. Biotechnol. Biochem. 65:1379-1387. [Abstract]

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Doyle, S. M., Braswell, E. H., and Teschke, C. M. (2000). SecA folds via a dimeric intermediate. Biochemistry 39, 11667-11676. [Abstract]

Dunn, S. D., Bi, Y., and Revington, M. (2000). A re-examination of the structural and functional consequences of mutation of alanine-128 of the b subunit of Escherichia coli ATP synthase to aspartic acid. Biochim. Biophys. Acta 1459, 521-527. [Abstract]

Qiu, L., Escalante, C. R., Aggarwal, A. K., Wilson, P. D., and Burrow, C. R. (2000). Monomeric midkine induces tumor cell proliferation in the absence of cell-surface proteoglycan binding. Biochemistry 39, 5977-5987. [Abstract]

Verdecia, M. A., Huang, H., Dutil, E., Kaiser, D. A., Hunter, T., and Noel, J. P. (2000). Structure of the human anti-apoptotic protein survivin reveals a dimeric arrangement. Nat. Struct. Biol. 7, 602-608. [Abstract]

Brendza, K. M., Sontag, C. A., Saxton, W. M., and Gilbert, S. P. (2000). A kinesin mutation that uncouples motor domains and desensitizes the gamma-phosphate sensor. J. Biol. Chem. 275, 22187-22195. [Abstract] [Full Text]

Deras, M.L., Brenowitz, M., Ralston, C.Y., Chance, M.R., and Woodson, S.A. (2000). Folding mechanism of the Tetrahymena ribozyme P4-P6 domain. Biochemistry 39:10975-10985.

Velten, M., B. O. Villoutreix, and M. M. Ladjimi. 2000. Quaternary structure of the HSC70 cochaperone HIP. Biochemistry 39:307-315. [Abstract]

Rivas, G., Lopez, A., Mingorance, J., Ferrandiz, M. J., Zorrilla, S., Minton, A. P., Vicente, M., and Andreu, J. M. (2000). Magnesium-induced linear self-association of the FtsZ bacterial cell division protein monomer. The primary steps for FtsZ assembly. J. Biol. Chem. 275, 11740-11749. [Abstract] [Full Text]

Mittl, P. R., Deillon, C., Sargent, D., Liu, N., Klauser, S., Thomas, R. M., Gutte, B., and Grutter, M. G. (2000). The retro-GCN4 leucine zipper sequence forms a stable three-dimensional structure. Proc. Natl. Acad. Sci. U. S. A. 97, 2562-2566. [PDF]

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Kirkitadze, M. D., Henderson, C., Price, N. C., Kelly, S. M., Mullin, N. P., Parkinson, J., Dryden, D. T., and Barlow, P. N. (1999). Central modules of the vaccinia virus complement control protein are not in extensive contact. Biochem. J. 344 Pt 1, 167-175. [PDF]

Colfen, H. and Schilling, C. (1999). Pseudo synthetic boundary experiments: a new approach to the determination of diffusion coefficients from sedimentation velocity experiments. Progr. Colloid Polym. Sci. 113, 44-49. [Abstract]

Maduke, M., Pheasant, D. J., and Miller, C. (1999). High-level expression, functional reconstitution, and quaternary structure of a prokaryotic ClC-type chloride channel. J. Gen. Physiol. 114, 713-722. [Abstract] [Full Text]

Carrasco, B., de la Torre, J. G., Byron, O., King, D., Walters, C., Jones, S., and Harding, S. E. (1999). Novel size-independent modeling of the dilute solution conformation of the immunoglobulin IgG Fab' domain using SOLPRO and ELLIPS. Biophys. J. 77, 2902-2910. [Abstract] [Full Text]

Kirkitadze, M. D., Jumel, K., Harding, S. E., Dryden, D. T. F., Krych, M., Atkinson, J. P., and Barlow, P. N. (1999). Combining ultracentrifugation with fluorescence to follow the unfolding of modules 16-17 of complement receptor type 1. Progr. Colloid Polym. Sci. 113, 164-167. [Abstract]

Lee, W. L., Ostap, E. M., Zot, H. G., and Pollard, T. D. (1999). Organization and ligand binding properties of the tail of Acanthamoeba myosin-IA. Identification of an actin-binding site in the basic (tail homology-1) domain. J. Biol. Chem. 274, 35159-35171. [Abstract] [Full Text]

Danilenko, D. N., S. Montestruque, J. S. Philo, T. S. Li, D. Hill, J. Speakman, M. Bahru, M. S. Zhang, O. Konishi, N. Itoh, M. Chirica, J. Delaney, N. Hernday, F. Martin, S. Hara, J. Talvenheimo, L. O. Narhi, and T. Arakawa. 1999. Recombinant rat fibroblast growth factor-16: Structure and biological activity. Arch. Biochem. Biophys. 361:34-46. [Abstract]

Cox, J. A., Durussel, I., Scott, D. J., and Berchtold, M. W. (1999). Remodeling of the AB site of rat parvalbumin and oncomodulin into a canonical EF-hand. Eur. J. Biochem. 264, 790-799. [Abstract] [Full Text]

Morales, A. J., Swairjo, M. A., and Schimmel, P. (1999). Structure-specific tRNA-binding protein from the extreme thermophile Aquifex aeolicus. EMBO J. 18, 3475-3483. [Abstract] [Full Text]

Fouchaq, B., N. Benaroudj, C. Ebel, and M. M. Ladjimi. 1999. Oligomerization of the 17-kDa peptide-binding domain of the molecular chaperone HSC70. Eur. J. Biochem. 259:379-384. [Abstract]

Hantgan, R. R., Paumi, C., Rocco, M., and Weisel, J. W. (1999). Effects of ligand-mimetic peptides Arg-Gly-Asp-X (X = Phe, Trp, Ser) on aIIb3 integrin conformation and oligomerization. Biochemistry 38, 14461-14474. [Abstract]

Scott, D. J., S. Leejeerajumnean, J. A. Brannigan, R. J. Lewis, A. J. Wilkinson, and J. G. Hoggett. 1999. Quaternary re-arrangement analysed by spectral enhancement: The interaction of a sporulation repressor with its antagonist. J. Mol. Biol. 293:997-1004. [Abstract]

Toedt, J. M., E. H. Braswell, T. M. Schuster, D. A. Yphantis, Z. F. Taraporewala, and J. N. Culver. 1999. Biophysical characterisation of a designed TMV coat protein mutant, R46G, that elicits a moderate hypersensitivity response in Nicotiana sylvestris. Protein Sci. 8:261-270. [PDF]

Revington, M., McLachlin, D. T., Shaw, G. S., and Dunn, S. D. (1999). The dimerization domain of the b subunit of the Escherichia coli F(1)F(0)-ATPase. J. Biol. Chem. 274, 31094-31101. [Abstract]

Lashuel, H. A., Wurth, C., Woo, L., and Kelly, J. W. (1999). The most pathogenic transthyretin variant, L55P, forms amyloid fibrils under acidic conditions and protofilaments under physiological conditions. Biochemistry 38, 13560-13573. [Abstract]

Schiffmann, D. A., White, J. H., Cooper, A., Nutley, M. A., Harding, S. E., Jumel, K., Solari, R., Ray, K. P., and Gay, N. J. (1999). Formation and biochemical characterization of tube/pelle death domain complexes: critical regulators of postreceptor signaling by the Drosophila toll receptor. Biochemistry 38, 11722-11733. [Abstract]

Narhi, L. O., Philo, J. S., Sun, B., Chang, B. S., and Arakawa, T. (1999). Reversibility of heat-induced denaturation of the recombinant human megakaryocyte growth and development factor. Pharm. Res. 16, 799-807. [Abstract]

Kirkitadze, M. D., Krych, M., Uhrin, D., Dryden, D. T., Smith, B. O., Cooper, A., Wang, X., Hauhart, R., Atkinson, J. P., and Barlow, P. N. (1999). Independently melting modules and highly structured intermodular junctions within complement receptor type 1. Biochemistry 38, 7019-7031. [Abstract]

Atkins, A. R., Osborne, M. J., Lashuel, H. A., Edelman, G. M., Wright, P. E., Cunningham, B. A., and Dyson, H. J. (1999). Association between the first two immunoglobulin-like domains of the neural cell adhesion molecule N-CAM. FEBS Lett. 451, 162-168. [Abstract]

Mechanic, L. E., Hall, M. C., and Matson, S. W. (1999). Escherichia coli DNA helicase II is active as a monomer. J. Biol. Chem. 274, 12488-12498. [Abstract]

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Acebo, P., Garcia de, L. M., Rivas, G., Andreu, J. M., Espinosa, M., and del, S. G. (1998). Structural features of the plasmid pMV158-encoded transcriptional repressor CopG, a protein sharing similarities with both helix-turn-helix and beta-sheet DNA binding proteins. Proteins 32, 248-261. [Abstract]

Schuck, P., MacPhee, C. E., and Howlett, G. J. (1998). Determination of sedimentation coefficients for small peptides. Biophys. J. 74, 466-474. [Abstract] [Full Text]

Taylor, R., Burgner, J. W., Clifton, J., and Cramer, W. A. (1998). Purification and characterization of monomeric Escherichia coli vitamin B12 receptor with high affinity for colicin E3. J. Biol. Chem. 273, 31113-31118. [Abstract] [Full Text]

Colfen, H., J. M. Boulter, S. E. Harding, and A. Watts. 1998. Ultracentrifugation studies on the transmembrane domain of the human erythrocyte anion transporter band 3 in the detergent C12E8. Eur. Biophys. J. 27:651-655.

Foster, K. A., J. J. Correia, and S. P. Gilbert. 1998. Equilibrium binding studies of non-claret disjunctional protein (Ncd) reveal cooperative interactions between the motor domains. J. Biol. Chem. 273:35307-35318. [Abstract] [Full Text]

Lashuel, H. A., Z. H. Lai, and J. W. Kelly. 1998. Characterization of the transthyretin acid denaturation pathways by analytical ultracentrifugation: Implications for wild-type, V30M, and L55P amyloid fibril formation. Biochemistry 37:17851-17864.

Rosenfeld, R. D., L. Zeni, A. A. Welcher, L. O. Narhi, C. Hale, J. Marasco, J. Delaney, T. Gleason, J. S. Philo, V. Katta, J. Hui, J. Baumgartner, M. Graham, K. L. Stark, and W. Karbon. 1998. Biochemical, biophysical, and pharmacological characterization of bacterially expressed human agouti-related protein. Biochemistry 37:16041-16052.

Zubrzycki, I. Z., L. K. Frankel, P. S. Russo, and T. M. Bricker. 1998. Hydrodynamic studies on the manganese-stabilizing protein of photosystem II. Biochemistry 37:13553-13558.

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Abril, A. M., Salas, M., Andreu, J. M., Hermoso, J. M., and Rivas, G. (1997). Phage phi29 protein p6 is in a monomer-dimer equilibrium that shifts to higher association states at the millimolar concentrations found in vivo. Biochemistry 36, 11901-11908. [Abstract]

Benaroudj, N., B. Fouchaq, and M. M. Ladjimi. 1997. The COOH-terminal peptide binding domain is essential for self- association of the molecular chaperone HSC70. J. Biol. Chem. 272:8744-8751.

Dean, J. L., H. Colfen, S. E. Harding, D. W. Rice, and P. C. Engel. 1997. Alteration of the quaternary structure of glutamate dehydrogenase from Clostridium symbiosum by a single mutation distant from the subunit interfaces. Eur. Biophys. J. 25:417-422.

Kolvenbach, C. G., L. O. Narhi, J. S. Philo, T. Li, M. Zhang, and T. Arakawa. 1997. Granulocyte-colony stimulating factor maintains a thermally stable, compact, partially folded structure at pH2. J. Pept. Res. 50:310-318.

Leroux, M. R., B. J. Ma, G. Batelier, R. Melki, and E. P. Candido. 1997. Unique structural features of a novel class of small heat shock proteins, J. Biol. Chem. 272:12847-12853.

Leroux, M. R., R. Melki, B. Gordon, G. Batelier, and E. P. Candido. 1997. Structure-function studies on small heat shock protein oligomeric assembly and interaction with unfolded polypeptides, J. Biol. Chem. 272:24646-24656.

Poppe, L., G. S. Brown, J. S. Philo, P. V. Nikrad, and B. H. Shah. 1997. Conformation of sLex tetrasaccharide, free in solution and bound to E-, P-, and L-selectin. J. Am. Chem. Soc. 119:1727-1736.

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Benaroudj, N., F. Triniolles, and M. M. Ladjimi. 1996. Effect of nucleotides, peptides, and unfolded proteins on the self- association of the molecular chaperone HSC70. J. Biol. Chem. 271:18471-18476.

Narhi, L. O., J. S. Philo, T. S. Li, M. Zhang, B. Samal, and T. Arakawa. 1996. Induction of a-helix in the b-sheet protein tumor necrosis factor-a: Thermal- and trifluoroethanol-induced denaturation at neutral pH. Biochemistry 35:11447-11453.

Narhi, L. O., J. S. Philo, T. S. Li, M. Zhang, B. Samal, and T. Arakawa. 1996. Induction of a-helix in the b-sheet protein tumor necrosis factor-a: Acid-induced denaturation. Biochemistry 35:11454-11460.

Rosenfeld, S. S., J. J. Correia, J. Xing, B. Rener, and H. C. Cheung. 1996. Structural studies of kinesin-nucleotide intermediates. J. Biol. Chem. 271:30212-30221.

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Benaroudj, N., G. Batelier, F. Triniolles, and M. M. Ladjimi. 1995. Self-association of the molecular chaperone HSC70. Biochemistry 34:15282-15290.

Correia, J. J., S. P. Gilbert, M. L. Moyer, and K. A. Johnson. 1995. Sedimentation studies on the kinesin motor domain constructs K401, K366, and K341. Biochemistry 34:4898-4907.

Lu, H. S., D. Chang, J. S. Philo, K. Zhang, L. O. Narhi, N. L. Liu, M. Zhang, J. L. Sun, J. Wen, D. Yanagihara, D. Karunagaran, Y. Yarden, and B. Ratzkin. 1995. Studies on the structure and function of glycosylated and nonglycosylated neu differentiation factors - similarities and differences of the alpha-isoform and beta-isoform. J. Biol. Chem. 270:4784-4791.

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Narhi, L. O., R. Rosenfeld, J. Wen, T. Arakawa, S. J. Prestrelski, and J. S. Philo. 1993. Acid-induced unfolding of brain-derived neurotrophic factor results in the formation of a monomeric "A state". Biochemistry 32:10819-10825.

Philo, J. S., R. Rosenfeld, T. Arakawa, J. Wen, and L. O. Narhi. 1993. Refolding of brain-derived neurotrophic factor from guanidine hydrochloride: Kinetic trapping in a collapsed form which is incompetent for dimerization. Biochemistry 32:10812-10818.

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