Publications
See Also: 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | 2000
List of publications coauthored by BCMB graduate students, undergraduate students, postdocs and faculty.
2008
Bible AN, Stephens BB, Ortega DR, Xie Z, Alexandre G. 2008. Function of a chemotaxis-like signal transduction pathway in modulating motility, cell clumping and cell length in the alpha-proteobacterium Azospirillum brasilense. J Bacteriol. Jul 18.
Schar CR, Jensen JK, Christensen A, Blouse GE, Andreasen PA, Peterson CB. 2008. Characterization of a site on PAI-1 that binds to vitronectin outside the somatomedin B domain. J Biol Chem. Jul 24. [Epub ahead of print]
Li JF and Nebenführ, A. 2008. Interdependence of dimerization and organelle binding in myosin XI. Plant J. 2008 Apr 17.
Bhaskara S, Chandrasekharan MB, Ganguly R. 2008. Caffeine induction of Cyp6a2 and Cyp6a8 genes of Drosophila melanogaster is modulated by cAMP and D-JUN protein levels. Gene 415: 49-59.
Woo J, Howell MH, von Arnim AG. 2008. Structure-function studies on the active site of the coelenterazine-dependent luciferase from Renilla. Protein Sci. 17:725-35.
Albright S, Chen B, Holbrook K, Jain NU. 2008. Solution NMR studies provide structural basis for endotoxin pattern recognition by the innate immune receptor CD14. Biochem Biophys Res Commun. 368:231-7.
Schar CR, Blouse GE, Minor KH, Peterson CB. 2008. A deletion mutant of vitronectin lacking the somatomedin B domain exhibits residual plasminogen activator inhibitor-1-binding activity. J Biol Chem 283:10297-309.
Li JF, Nebenführ A. 2008. The tail that wags the dog: the globular tail domain defines the function of myosin V/XI. Traffic 9:290-8.
Prosser RA, Mangrum CA, Glass JD. 2008. Acute ethanol modulates glutamatergic and serotonergic phase shifts of the mouse circadian clock in vitro. Neuroscience 152:837-48.
Chopra S, Dooling RM, Horner CG, Howell EE. 2008. A balancing act between net uptake of water during dihydrofolate binding and net release of water upon NADPH binding in R67 dihydrofolate reductase. J Biol Chem 283:4690-8.
Feng J, Goswami S, Howell EE. 2008. R67, the other dihydrofolate reductase: rational design of an alternate active site configuration. Biochemistry 47:555-65.
Ozen C, Norris AL, Land ML, Tjioe E, Serpersu EH. 2008. Detection of specific solvent rearrangement regions of an enzyme: NMR and ITC studies with aminoglycoside phosphotransferase(3')-IIIa. Biochemistry 47:40-9.
2007
Jackson MR, Beahm R, Duvvuru S, Narasimhan C, Wu J, Wang HN, Philip VM, Hinde RJ, Howell EE. 2007. A preference for edgewise interactions between aromatic rings and carboxylate anions: the biological relevance of anion-quadrupole interactions. J Phys Chem B 111:8242-9.
Thomas SE, McKee BD. 2007. Meiotic pairing and disjunction of mini-X chromosomes in Drosophila is mediated by 240bp rDNA repeats and the homolog conjunction proteins SNM and MNM. Genetics epub Jul 29.
Choi WG, Roberts DM. 2007. Arabidopsis NIP2;1: A major intrinsic protein transporter of lactic acid induced by anoxic stress. J Biol Chem epub Jun 21.
Nelson BK, Cai X, Nebenführ A. 2007. A multicolored set of in vivo organelle markers for co-localization studies in Arabidopsis and other plants. Plant J epub Jul 30.
Guo HB and H. Guo (2007) Mechanism of Histone Methylation Catalyzed by Protein Lysine Methyltransferase SET7/9 and Origin of Product Specificity, Proc Natl Acad Sci USA, 104, 8797-8802.
Reddick LE, Vaughn MD, Wright SJ, Campbell IM, Bruce BD. 2007. In vitro comparative kinetic analysis of the chloroplast toc GTPases. J Biol Chem 282:11410-26.
Soltani-Bejnood M, Thomas SE, Villeneuve L, Schwarz KT, Hong CS, McKee BD. 2007. Role of the mod(mdg4)common region in homolog segregation in Drosophila male meiosis. Genetics 176: 161-180.
Kim BH, Cai X, Vaughn JN, von Arnim AG. 2007. On the functions of the h subunit of eukaryotic initiation factor 3 in late stages of translation initiation. Genome Biol 8:R60.
Jackson MR, Beahm R, Duvvuru S, Narasimhan C, Wu J, Wang HN, Philip VM, Hinde RJ, Howell EE. 2007. A preference for edgewise interactions between aromatic rings and carboxylate anions: the biological relevance of anion-quadrupole interactions. J Phys Chem B 111:8242-9.
Wright E, Vincent J, Fernandez EJ. 2007. Thermodynamic characterization of the interaction between CAR-RXR and SRC-1 peptide by isothermal titration calorimetry. Biochemistry 46:862-70.
Li JF, Nebenführ A. 2007. Organelle targeting of myosin XI is mediated by two globular tail subdomains with separate cargo binding sites. J Biol Chem. 282:20593-602.
Xu Q, Guo HB, Wlodawer A, Nakayama Y, and Guo H. (2007) The QM/MM molecular dynamics and free energy simulations of the acylation process catalyzed by the serine carboxyl peptidase kumamolisin-As, Biochemistry, 46, 3784-3792.
Kuruganti S, Lam V, Zhou X, Bennett G, Pittendrigh BR, Ganguly R. 2007. High expression of Cyp6g1, a cytochrome P450 gene, does not necessarily confer DDT resistance in Drosophila melanogaster. Gene 388:43-53.
2006
Lee G, Bahn JH, Park JH. 2006. Sex- and clock-controlled expression of the neuropeptide F gene in Drosophila. Proc Natl Acad Sci USA 103:12580-5.
Bennett B, Langan P, Coates L, Mustyakimov M, Schoenborn B, Howell EE, Dealwis C (2006). Neutron diffraction studies of Escherichia coli dihydrofolate reductase complexed with methotrexate. Proc Natl Acad Sci USA 103: 18493-18498.
Stephens BB, Loar SN, Alexandre G. 2006. Role of CheB and CheR in the complex chemotactic and aerotactic pathway of Azospirillum brasilense. J Bacteriol. 188:4759-4768.
Prosser RA, Lee HM, Wehner A 2006. Serotonergic pre-treatments block in vitro serotonergic phase shifts of the mouse suprachiasmatic nucleus circadian clock. Neuroscience 142:547-555.
Xu Q, Guo HB, Wlodawer A, and Guo H 2006. The Importance of Dynamics in Substrate-Assisted Catalysis and Specificity, J Am Chem Soc 128:5994-5995.
Choi Y.J., Lee G., Park JH. 2006. Programmed cell death mechanisms of identifiable peptidergic neurons in Drosophila melanogaster. Development 133:2223-32.
Ozen C, Malek JM, Serpersu EH. 2006. Dissection of aminoglycoside-enzyme interactions: a calorimetric and NMR study of neomycin B binding to the aminoglycoside phosphotransferase(3')-IIIa. J Am Chem Soc. 128:15248-54.
Chopra S, Lynch R, Kim SH, Jackson M, Howell EE. 2006. Effects of temperature and viscosity on R67 dihydrofolate reductase catalysis. Biochemistry 45:6596-605.
Bhaskara S., Dean E.D., Lam V., Ganguly R. 2006. Induction of two cytochrome P450 genes, Cyp6a2 and Cyp6a8, of Drosophila melanogaster by caffeine in adult flies and in cell culture. Gene 377:56-64.
von Arnim AG, Schwechheimer C 2006. Meeting Report: Life is degrading--thanks to some zomes. Mol Cell 23:621-9.
Xu H, Faber C, Uchiki T, Racca J, Dealwis C 2006. Structures of eukaryotic ribonucleotide reductase I define gemcitabine diphosphate binding and subunit assembly. Proc Natl Acad Sci USA 103:4028-4033.
Xu H, Faber C, Uchiki T, Fairman JW, Racca J, Dealwis C 2006. Structures of eukaryotic ribonucleotide reductase I provide insights into dNTP regulation. Proc Natl Acad Sci USA 103, 4022-4027.
Subramanian C, Woo JC, Cai X, Xu X, Servick S, Johnson CH, Nebenführ A, and von Arnim AG 2006. A suite of tools and application notes for in vivo protein interaction assays using Bioluminescence Resonance Energy Transfer (BRET). Plant Journal 48: 138-152.
Kim, BH and von Arnim AG 2006. The early dark-response in Arabidopsis thaliana revealed by cDNA microarray analysis. Plant Molecular Biology 60, 321-342.
Guo HB, Wlodawer A, Nakayama T, Xu Q, and Guo H 2006. On the Catalytic role of Proton Transfers in The Formation of Tetrahedral Adduct in a Serine Carboxyl Peptidase, Biochemistry, 45:9129-9137.
2005
A.L. TOURNIER, V. REAT, R. DUNN, R. DANIEL, J.C. SMITH and J. FINNEY. Temperature and timescale dependence of protein dynamics in methanol:water mixtures. Physical Chemistry Chemical Physics 7 1388–1393 (2005).
Thomas SE, Soltani-Bejnood M, Roth P, Dorn R, Logsdon JM, McKee BD 2005. Identification of two proteins required for conjunction and accurate segregation of achiasmate homologs in Drosophila male meiosis. Cell 123: 555-568.
Balbo A, Minor KH, Velikovsky CA, Mariuzza RA, Peterson CB, Schuck P (2005) Studying Multi-Protein Complexes by Multi-Signal Sedimentation Velocity Analytical Ultracentrifugation. Proc Natl Acad Sci USA 102, 81-86.
Minor KH, Schar CR, Blouse GE, Shore JD, Lawrence DA, Schuck P, Peterson CB (2005). A Mechanism for Assembly of Complexes of Vitronectin and Plasminogen Activator Inhibitor-1 from Sedimentation Velocity Analysis. J Biol Chem 280: 28711-28720.
Jackson M, Chopra S, Smiley RD, Maynord PO, Rosowsky A, London RE, Levy L, Kalman TI, Howell EE. (2005). Calorimetric studies of ligand binding in R67 dihydrofolate reductase. Biochemistry 44:12420-33.
Guo H, Rao N, Xu Q, Guo H (2005). Origin of Tight Binding of a Near-perfect Transition State Analog by Cytidine Deaminase: Implications for Enzyme Catalysis. J Am Chem Soc 127: 3191-.
Gentry, A. and Venkatachalam S. 2005. Complicating the role of p53 in aging. Aging Cell 4: 157-160.
Vincill ED, Szczyglowski K, Roberts DM 2005. GmN70 and LjN70: Anion transporters of the symbiosome membrane of nodules with a transport preference for nitrate. Plant Physiol 137: 1435-44.
Wallace IS, Roberts DM (2005) Distinct transport selectivity of two structural subclasses of the Nodulin-like Intrinsic Protein family of plant aquaglyceroporin channels. Biochemistry 44, 16826-34.
2004
Sharan S, Pyle A, Benedict J, Coppola V, Martin B, Tessarollo L, Flaws J, Handel MA (2004) Partial Complementation of Brca2 Mutation in Mice by the Human BRCA2 Gene Shows a Sexually Dimorphic Meiotic Phenotype. Development 131: 131-4.
Shan L, Vincent J, Brunzelle JS, Dussault I, Lin M, Ianculescu I, Sherman MA, Forman BM, Fernandez EJ. (2004). Structure of the murine constitutive androstane receptor complexed to androstenol: a molecular basis for inverse agonism. Mol Cell 16:907-17.
Lee G., Park J.H. (2004). Hemolymph sugar homeostasis and starvation-induced hyperactivity affected by genetic manipulations of the adipokinetic hormone-encoding gene in Drosophila melanogaster. Genetics 167:311-23.
Subramanian, C., Kim, B.H., Lyssenko, N.N., Xu, X, Johnson, C.H., and von Arnim, A.G. (2004). The Arabidopsis repressor of light signaling, COP1, is regulated by nuclear exclusion: Mutational analysis by bioluminescence resonance energy transfer. Proc Natl Acad Sci 101:6798-6802.
Hicks S.N., Smiley R.D., Stinnett L.G., Minor K.H., Howell E.E. (2004). Role of Lys-32 residues in R67 dihydrofolate reductase probed by asymmetric mutations. J Biol Chem 279:46995-7002.
Kim, T.H., Kim, B.H., Yahalom, A., Chamovitz, D.A., and von Arnim, A.G. (2004). Developmental regulation via 5' mRNA leader sequences through the translation initiation factor subunit eIF3h in Arabidopsis. Plant Cell 16, 3341-3356.
Wallace I.S., Roberts D.M. (2004). Homology modeling of representative subfamilies of Arabidopsis major intrinsic proteins. Classification based on the aromatic/arginine selectivity filter. Plant Physiol 135, 1059-68.
Stinnett L.G., Smiley R.D., Hicks S.N., Howell E.E. (2004) "Catch 222," the effects of symmetry on ligand binding and catalysis in R67 dihydrofolate reductase as determined by mutations at Tyr-69. J Biol Chem 279:47003-9.
Xu Q and Guo H (2004) Quantum Mechanical/Molecular Mechanical Molecular-Dynamics Simulations of Cytidine Deaminase: from Stabilization of Transition-State Analogs to Catalytic Mechanisms, J Phys Chem B, 108, 2477-2483.
2003
Pyle AD, Handel MA (2003) Genetic and Phenotypic Complexity in PL/J Males with Multiple Meiotic Abnormalities Leading to Sperm Aneuploidy. Molecular Reproduction and Development 64: 471-481.
2002
Eaker S, Cobb J, Pyle A, Handel MA (2002) Meiotic Prophase Abnormalities in MLH1-Deficient Mouse Spermatocytes and Metaphase Cell Death: Insights into Regulation of Spermatogenic Progress. Developmental Biology 249: 85-95.
2001
Eaker S, Pyle AD, Cobb J, Handel MA (2001) Evidence for Meiotic Spindle Checkpoint from Analysis of Spermatocytes from Robertsonian Chromosome Heterozygous Mice. Journal of Cell Science 114: 2953-2965.
2000
Cobb, J.A. and Roberts, D.M. (2000) Structural requirements for N-trimethylation of lysine-115 of calmodulin. Journal of Biological Chemistry, 275: 18969-18975.