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Biophysics of Macromolecules – Tutorial and additional reading

Tutorial and additional reading to "Biophysics of Macromolecules"


Time/Place: Thursday 10:00-10:45 or 11:00-11:45 or 18:00-18:45 (Rm N109)


21st Oct: Exercise 01 (pdf) (Loesung_01)
reading: (BioPhyChap1)

28th Oct: Exercise 02 (pdf)(Loesung_02)
reading: http://www.nature.com/nnano/journal/v5/n2/pdf/nnano.2009.377.pdf

04th Nov: Exercise 03 (pdf)
(Loesung_03a)(Loesung_03b)

11th Nov: Exercise 04 (pdf) (Loesung_04)
GFP-Protein: Nobel prize 2006 (pdf) Ormo et al 1996 (pdf) Andrews et al 2008 (pdf)
RNA polymerase II: Nobel prize 2008 (pdf) Cramer et al 2000 (pdf), Cramer et al 2001 (pdf) , Gnatt et al. 2001 (pdf)

18th Nov: Exercise 05 Force spectroscopy (pdf) (Loesung_05 Astrid Zeder)
"Immunoglobulin Domains by AFM Reversible Unfolding of Individual Titin",M. Rief et al. Science 276, 1109 (1997) (pdf)

02nd Dec: Exercise 06 Michaelis Menton (pdf) (Loesung_06)
"Measurement of the Force-Velocity Relation for Growing Microtubules", M.Dogterom et al. SCIENCE VOL. 278 (1997) p856 (pdf)

16th Dec: Exercise 07 (pdf) (Loesung_07 (Frohnmayer))
review article: Svoboda&Block, Annu. Rev. Biophys. Biomol. Struct. 1994. 23.’247-85 (pdf)
reading and presentations:
"Myosin-V is a processive actin-based motor", M. Rief et al. Nature Vol.400, p590 (1999) (pdf)
"Stepwise rotation of the Q-subunit of EF0F1-ATP synthase", Borsch et al paper FEBS Letters 527 (2002) (pdf)

20th Jan: Exercise 08 (pdf) (Loesung_08)
additional reading http://physchem.kfunigraz.ac.at/rc/Ribitsch_Pfragner/Rheo%20VL%20verd%FCnnte%20Systeme.pdf
"Overstretching B-DNA: the elastic response of individual double-stranded and single-stranded DNA molecules".
Smith SB, Cui Y, Bustamante C: Science 271:795-799 (1996)
"The elasticity of a single supercoiled DNA molecule", Strick et al. Science 271:1835-1837 (1996)

27th Jan: Exercise 09 (pdf) (Loesung_09)
"The bacteriophage f29 portal motor can package DNA against a large internal force"
Smith et al. NATURE VOL 413 p748 (2001)
"Self-assembly of a nanoscale DNA box with a controllable lid", Anderson et.al. Nature Vol 459 p.73
(2009) 

"Single-molecule chemical reactions on DNA origami", Voigt et al. Nature Nanotechnology (2010)

03th Feb: Probeklausur (pdf) (Loesung)
Anmerkung zu Q4 (Q4)

10th Feb: Klausur (Musterlösung) (Ergebnisse)
Die Klausur beginnt um 9:00 (bitte rechtzeitig vorher kommen!)

further options for presentations:



DNA related physics
"The bacteriophage f29 portal motor can package DNA against a large internal force"
Smith et al. NATURE VOL 413 p748 (2001)
"Osmotic pressure inhibition of DNA ejection from phage", Evilevitch et al. PNAS vol.100 (16) p.9292 (2000)
"Replication by a single DNA polymerase of a stretched single-stranded DNA", Maier et al. PNAS vol. 9(22), p.12002 (2000)

DNA nanotechnology
"DNA Fuel for free running nanomachines", Turberfield et al., PRL 90(11) (2003)


"Self-assembly of a nanoscale DNA box with a controllable lid", Anderson et.al. Nature Vol 459 p.73
(2009) 

"Single-molecule chemical reactions on DNA origami", Voigt et al. Nature Nanotechnology (2010)