Biophysics

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2004


Andrekopoulos C, Zhang H, Joseph J, Kalivendi S, Kalyanaraman B. Bicarbonate enhances alpha-synuclein oligomerization and nitration: intermediacy of carbonate radical anion and nitrogen dioxide radical. Biochem. J. 378:435-447 (2004).

Austermuhle MI, Hall JA, Klug CS, Davidson AL. Maltose binding protein is open in the catalytic transition state for ATP hydrolysis during maltose transport. J. Biol. Chem. 279:28243-28250 (2004).

Bates IR, Boggs JM, Feix JB, Harauz G. An immunodominant epitope of myelin basic protein is an amphipathic a-helix. J. Biol. Chem. 279:5757-5764 (2004).

Bennett KM, Hyde JS, Rand SD, Bennett R, Krouwer HG, Rebro KJ, Schmainda KM. Intravoxel distribution of DWI decay rates reveals C6 glioma invasion in rat brain. Magn. Reson. Med. 52:994-1004 (2004).

Bhargava K, Feix JB. Membrane binding, structure, and localization of cecropin-mellitin hybrid peptides: A site-directed spin labeling study. Biophys. J. 86:329-336 (2004).

Buchaklian AH, Funk AL, Klug CS. The resting state conformation of the MsbA homodimer as studied by site-directed spin labeling. Biochemistry 43:8600-8606 (2004).

Crawford JH, Chacko BK, Pruitt HJ, Piknova B, Hogg N, Patel RP. Transduction of NO-bioavailability by the red blood cell in sepsis: Novel mechanisms of vasodilation during acute inflammatory disease. Blood 104:1375-1382 (2004).

Dhanasekaran A, Kotamraju S, Kalivendi SV, Matsunaga T, Shang T, Keszler A, Joseph J, Kalyanaraman B. Supplementation of endothelial cells with mitochondria-targeted antioxidants inhibit peroxide-induced mitochondrial iron uptake, oxidative damage, and apoptosis. J. Biol. Chem. 279:37575-37587 (2004).

Dinakarpandian D, Morrissette V, Chaudhary S, Amini K, Bennett B, Van Horn JD. An informatics search for the low-molecular weight chromium-binding peptide. BMC Chem. Biol. 4:2 (2004).

Everson CA, Laatsch CD, Hogg N. Antioxidant defense responses to sleep loss and sleep recovery. Am. J. Physiol. Regul. Integr. Comp. Physiol. 288:R374-R3783 (2004).

Hodges YK, Antholine WE, Horwitz LK. Effect on ribonucleotide reductase of novel lipophilic iron chelators: The desferri-exochelins. Biochem. Biophys. Res. Commun. 315:595-598 (2004).

Hyde JS, Yin J-J, Subczynski WK, Camenisch TG, Ratke JJ, Froncisz W. Spin label EPR T1 values using saturation recovery from 2 to 35 GHz. J. Phys. Chem. B 108:9524-9529 (2004).

Kalivendi SV, Cunningham S, Kotamraju S, Joseph J, Hillard CJ, Kalyanaraman B. Alpha-synuclein up-regulation and aggregation during MPP+-induced apoptosis in neuroblastoma cells: Intermediacy of transferrin receptor iron and hydrogen peroxide. J. Biol. Chem. 279:15240-15247 (2004).

Kalyanaraman B. Introduction to protein radicals in biological systems—ESR spin trapping and immuno spin trapping approaches. Free Radic. Biol. Med. 36:1071 (2004).

Kalyanaraman B. Introduction to redox-active metal ions, reactive oxygen species and apoptosis. Free Radic. Biol. Med. 37:573 (2004).

Kalyanaraman B. Nitrated lipids: A class of cell-signaling molecules. Proc. Natl. Acad. Sci. USA 101:11527-11528 (2004).

Karunakaran C, Zhang H, Crow JP, Antholine WE, Kalyanaraman B. Direct probing of copper active site and free radical formed during bicarbonate-dependent peroxidase activity of bovine and human copper, zinc superoxide dismutases: Low-temperature EPR and ENDOR studies. J. Biol. Chem. 279:32534-32540 (2004).

Kim-Shapiro DB, Patel RP, Schechter AN, Gladwin MT, O' Cannon III R, Hogg N. How do red blood cells dilate blood vessels?—Reply. Circ. Res. 95:e10 (2004).

Kotamraju S, Kalivendi SV, Konorev E, Chitambar CR, Joseph J, Kalyanaraman B. Oxidant-induced iron signaling in Doxorubicin-mediated apoptosis. Meth. Enzymol. 378:362-382 (2004).

Kotamraju S, Tampo Y, Kalivendi SV, Joseph J, Chitambar RC, Kalyanaraman B. Nitric oxide mitigates peroxide-induced iron signaling, oxidative damage, and apoptosis in endothelial cells: Role of proteasomal function? Arch. Biophys. Biochem. 423:74-80 (2004).

Logan BR, Rowe DB. An evaluation of thresholding techniques in fMRI analysis. Neuroimage 22:95-108 (2004).

Lu H, Jesmanowicz A, Li SJ, Hyde JS. Momentum-weighted conjugate gradient descent algorithm for gradient coil optimization. Magn. Reson. Med. 51:158-164 (2004).

Lu H, Patel S, Luo F, Li SJ, Hillard CJ, Ward BD, Hyde JS. Spatial correlations of laminar BOLD and CBV responses to rat whisker stimulation with neuronal activity localized by Fos expression. Magn. Reson. Med. 52:1060-1068 (2004).

Luo F, Xi ZX, Wu G, Liu C, Gardner EL, Li SJ. Attenuation of brain response to heroin correlates with the reinstatement of heroin-seeking in rats by fMRI. Neuroimage 22:1328-1335 (2004).

Matsunaga T, Kotamraju S, Kalivendi SV, Dhanasekaran A, Joseph J, Kalyanaraman B. Ceramide-induced intracellular oxidant formation, iron signaling, and apoptosis in endothelial cells: Protective role of endogenous nitric oxide. J. Biol. Chem. 279:28614-28624 (2004).

Merker MP, Bongard RD, Krenz GS, Zhao H, Fernandez VS, Kalyanaraman B, Hogg N, Audi SH. Impact of pulmonary arterial endothelial cells on duroquinone redox status. Free Radic. Biol. Med. 37:86-103 (2004).

Mett RR, Sidabras JW, Hyde JS. Radio frequency skin depth concepts in magnetic resonance. Curr. Top. Biophys. 28:117-122 (2004).

Myers JM, Antholine WE, Myers CR. Vanadium(V) reduction by Shewanella oneidensis MR-1 requires menaquinone and cytochromes from the cytoplasmic and outer membranes. Environ. Microbiol. 70:405-412 (2004).

Pieper GM, Khanna AK, Kampalath BN, Felix CC, Hilton G, Johnson CP, Adams MB, Roza AM. Inhibition of nitrosylation, nitration, lymphocyte proliferation, and gene expression in acute and delayed cardiac allograft rejection by an orally active dithiocarbamate. J. Cardiovasc. Pharmacol. 43:522-530 (2004).

Pieper GM, Nilakantan V, Hilton G, Zhou X, Khanna AK, Halligan NL, Felix CC, Kampalath B, Griffith OW, Hayward MA, Roza AM, Adams MB. Variable efficacy of N6-(1-iminoethyl)-L-lysine in acute cardiac transplant rejection. Am. J. Physiol. Heart. Circ. Physiol. 286:H525-H534 (2004).

Rowe DB, Logan BR. A complex way to compute fMRI activation. Neuroimage 23:1078-1092 (2004).

Schmainda KM, Rand SD, Joseph AM, Lund R, Ward BD, Pathak AP, Ulmer JL, Badruddoja MA, Krouwer HG. Characterization of a first-pass gradient-echo spin-echo method to predict brain tumor grade and angiogenesis. AJNR Am. J. Neuroradiol. 25:1524-1532 (2004); erratum in AJNR Am. J. Neuroradiol. 26:686 (2005).

Seravalli J, Xiao Y, Gu W, Cramer SP, Antholine WE, Krymov V, Gerfen GJ, Ragsdale SW. Evidence that Ni-Ni acetyl-CoA synthase is active and that the Cu-Ni enzyme is not. Biochemistry 43:3944-3955 (2004).

Shang T, Kotamraju S, Kalivendi SV, Hillard CJ, Kalyanaraman B. 1-methyl-4-phenylpyridinium-induced apoptosis in cerebellar granule neurons is mediated by transferrin receptor iron-dependent depletion of tetrahydrobiopterin and neuronal nitric oxide synthase-derived superoxide. J. Biol. Chem. 279:19099-19112 (2004).

Shi Y, Hutchins WC, Su J, Siker D, Hogg N, Pritchard Jr. KA, Keszler A, Tweddell JS, Baker JE. Delayed cardioprotection with isoflurane: Role of reactive oxygen and nitrogen. Am. J. Physiol. Heart Circ. Physiol. 288:H175-H184 (2004).

Stamper CC, Bienvenue DL, Bennett B, Ringe D, Petsko GA, Holz RC. Spectroscopic and X-ray crystallographic characterization of bestatin bound to the aminopeptidase from Aeromonas (Vibrio) proteolytica. Biochemistry 43:9620-9628 (2004).

Tubbs KJ, Szajna E, Bennett B, Halfen JA, Watkins R, Arif AM, Berreau LM. Mononuclear nitrogen/sulfur-ligated Cobalt(II) methoxide complexes: Structural, EPR, paramagnetic 1H NMR, and electrochemical investigations. Dalton Trans. 2398-2399 (2004).

Wang S, Konorev EA, Kotamraju S, Joseph J, Kalivendi S, Kalyanaraman B. Doxorubicin induces apoptosis in normal and tumor cells via distinctly different mechanisms: Intermediacy of H2O2- and p53-dependent pathways. J. Biol. Chem. 279:25535-25543 (2004).

Wang X, Tanos-Santos JE, Reiter CD, Dejam A, Shiva S, Smith RD, Hogg N, Gladwin MT. Biologic activity of nitric oxide in the plasmatic compartment. Proc. Natl. Acad. Sci. USA 101:11477-11482 (2004).

Xi ZX, Wu G, Stein EA, Li S-J. Opiate tolerance by heroin self-administration: An fMRI study in rat. Magn. Reson. Med. 52:108-114 (2004).

Zhang H, Andrekopoulos C, Joseph J, Crow JP, Kalyanaraman B. The carbonate radical anion-induced covalent aggregation of human copper,zinc superoxide dismutase and alpha-synuclein—intermediacy of tryptophan- and tyrosine-derived oxidation products. Free Radic. Biol. Med. 36:1355-1365 (2004).

Zhang H, Joseph J, Crow JP, Kalyanaraman B. Mass spectral evidence for carbonate-anion-radical-induced posttranslational modification of tryptophan to kynurenine in human Cu, Zn superoxide dismutase. Free Radic. Biol. Med. 37:2018-2026 (2004).

Zhang Y, Hogg N. The formation and metabolism of S-nitrosothiols in RAW 264.7 cells. Am. J. Physiol. Lung Cell Mol. Physiol. 287:L467-L474 (2004).

Zhang Y, Hogg N. The mechanism of transmembrane S-nitrosothiol transport. Proc. Natl. Acad. Sci. USA 101:7891-7996 (2004).

Zhang Y, Hogg N. S-nitrosohemoglobin: A biochemical perspective. Free Radic. Biol. Med. 36:947-958 (2004).

Zhao M, Weissleder R. Intracellular cargo delivery using HIV-1 tat peptide and derivatives. Med. Res. Rev. 24:1-12 (2004).

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