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Oxford University Press - Online Resource Centres

Campbell: Biophysical Techniques

Journal club

The following 15 papers/reviews are chosen to illustrate recent applications of biophysical tools and the wide range of experimental approaches that are available. While some of these illustrate the application of a particular tool, many of them illustrate the application of several biophysical tools to one particular topic (e.g. protein folding); these examples were chosen to emphasize how various experimental approaches provide complementary information about a biological problem. The reader is, however, also encouraged to use the various available Search engines such as Google and PubMed to explore the literature themselves.

Journal Club 1 - Protein folding
Bartlett AI, Radford SE. An expanding arsenal of experimental methods yields an explosion of insights into protein folding mechanisms Nature Structural and Molecular Biology 16, 582-8, 2009
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Journal Club 2 - Protein misfolding
Chiti F, Dobson CM. Protein misfolding, functional amyloid, and human disease. Annu Rev Biochem. 75, 333-66, 2006
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Journal Club 3 - Structural proteomics
Geerloff A et al. The impact of protein characterization in structural proteomics. Acta Cryst D62. 1125–36, 2006
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Journal Club 4 - G-coupled protein receptors
Shukla AK, Sun JP, Lefkowitz RJ. Crystallizing thinking about the beta2-adrenergic receptor. Mol Pharmacol. 2008 May; 73(5):1333-8.
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Journal Club 5 - Single molecule techniques applied to transcription
Wang F, Greene EC. Single-Molecule Studies of Transcription: From one RNA polymerase at a time to the gene expression profile of a cell. J Mol Biol. 2011 Jan 19
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Journal Club 6 - The proteasome
Ruschak AM, Religa TL, Breuer S, Witt S, Kay LE. The proteasome antechamber maintains substrates in an unfolded state. Nature. 2010 Oct 14;467(7317):868-71
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Journal Club 7 - Rotation of ATP synthase
Nakanishi-Matsui M, Sekiya M, Nakamoto RK, Futai M. The mechanism of rotating proton pumping ATPases. Biochim Biophys Acta. 2010 Aug;1797(8):1343-52
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Journal Club 8 - The bacterial flagellar motor
Delalez NJ, Wadhams GH, Rosser G, Xue Q, Brown MT, Dobbie IM, Berry RM, Leake  MC, Armitage JP. Signal-dependent turnover of the bacterial flagellar switch protein FliM. Proc Natl Acad Sci U S A. 2010 Jun 22; 107(25):11347-51
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Journal Club 9 - Enzyme catalysis
Alegre-Cebollada J, Perez-Jimenez R, Kosuri P, Fernandez JM. Single-molecule force spectroscopy approach to enzyme catalysis. J Biol Chem. 2010 Jun 18;285(25):18961-6. Epub 2010 Apr 9
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Journal Club 10 - Proteomics of complex I
Klodmann J, Braun HP. Proteomic approach to characterize mitochondrial complex I from plants. Phytochemistry 2010 Dec 15
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Journal Club 11 - Super-resolution microscopy
Hell SW. Microscopy and its focal switch. Nat Methods. 6 24-32, 2009
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Journal Club 12 - Optogenetics
Peron S, Svoboda K. From cudgel to scalpel: toward precise neural control with optogenetics. Nat Methods. 2011 Jan; 8(1):30-4
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Journal Club 13 - Photosynthesis, EPR and contributions of George Feher
Feher G. My road to biophysics: picking flowers on the way to photosynthesis. Annu Rev Biophys Biomol Struct. 31: 1-44, 2002
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Journal Club 14 - Cryogenic EM tomography
Leis A, Rockel B, Andrees L, Baumeister W. Visualizing cells at the nanoscale. Trends Biochem Sci. 2009 Feb;34(2):60-70
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Journal Club 15 - Microscale thermophoresis
Seidel SA, Wienken CJ, Geissler S, Jerabek-Willemsen M, Duhr S, Reiter A, Trauner D, Braun D, Baaske P. Label-free microscale thermophoresis discriminates sites and affinity of protein-ligand binding. Angew Chem Int Ed Engl. 2012 Oct 15;51(42):10656-9
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