dept of biochemistry and molecular biophysics



Bio5443 - Nucleic Acids and Proteins Journal Club

 

Coursemaster:


Peter Burgers
Department of Biochemistry & Molecular Biophysics
1911 South Building
362-3872
e-mail: burgers@biochem.wustl.edu

Place: Biochemistry Seminar Room - McDonnell Science 264
Time: Tuesday 12:00-1:00 PM
First Class: September 18, 2007

The biochemistry of nucleic acids, proteins and nucleic acid-protein interactions. Focus is on the functional and structural properties of these molecules, addressed through basic biochemical and quantitative approaches.

September 18, 2007



"Translation" movie from 1971.

Sign up sheet will be present.

September 25, 2007

Peter Burgers

"Yeast DNA Polymerase {epsilon} Participates in Leading-Strand DNA Replication "

Reference: Pursell, Z.F., Isoz, I., Lundström, E-B., Johansson, E., and Kunkel, T.A..

Science 317:127-130 (2007).

October 2, 2007

Edwin Antony

"The Chromatin-remodeling Enzyme ACF is an
ATP-dependent DNA Length Sensor that Regulates
Nucleosome Spacing"

Reference: Yang, J.G., Madrid, T.S., Sevastopoulos, E. & Narlikar, G.J.

Nature Structural & Molecular Biology 13:1078-1083 (2006)

October 9, 2007

Colin Wu

"Single-Molecule Studies Reveal Dynamics of DNA Unwinding by the Ring-Shaped T7 Helicase"

Reference: Johnson, D.S., Bai, L., Smith, B.Y., Patel, S.S. and Wang, M.D.

Cell 129:1249-50 (2007).

October 16, 2007

Tim Lohman

"NS3 Helicase Actively Separates RNA Strands and Senses Sequence Barriers Ahead of the Opening Fork"

Reference: Cheng, W., Dumont, S., Tinoco, Jr., I. and Bustamante, C.

PNAS 104:13954-13959 (2007).

October 23, 2007

Cindy Montana

"A Systems Approach to Measuring the Binding Energy Landscapes of Transcription Factors "

Reference: Maerkl, S.J. and Quake, S.R.
Science 315:233-237 (2007)

October 30, 2007

Geoffrey Ravilious

"A Hand-Off Mechanism for Primosome Assembly in Replication
Restart"

Reference: Lopper, M., Boonsombat, R., Sandler, S.J. and Keck, J.L.
Mol Cell 26:781-793 (2007)

November 6, 2007

Kathleen Hall

"Crystal Structure of Human DGCR8 Core"

Reference: Sohn, S.Y., Bae, W.J., Kim, J.J., Yeom, K-H., Kim, V.N. and Cho, Y.
Nat Struct Mol Biol 14:847-853 (2007)

November 13, 2007

Sara Binz

"Mechanisms by Which Bloom Protein Can Disrupt Recombination Intermediates of Okazaki Fragment Maturation"

Reference: Bartos, J.D., Wang, W., Pike, J.E. and Bambara, R.A.
J Biol Chem. 281:32227-32239 (2006)

November 20, 2007

Haifeng Jia

"DEAD-Box Proteins Unwind Duplexes by Local Strand Separation"

Reference: Yang, Q., Del Campo, M., Lambowitz, A.M. and Jankowsky, E.
Molecular Cell 28:253-263 (2007)

November 27, 2007

Alaji Bah

"Structural Basis for the Methylation State-Specific Recognition of Histone H4-K20 by 53BP1 and Crb2 in DNA Repair"


Reference: Botuyan, M.V., Lee, J., Ward, I.M., Kim, J-E., Thompson, J.R., Chen, J. and Mer, G.
Cell 127:1361-1373 (2006)

December 4, 2007

Eric Tomko

"Dynamic Basis for One-Dimensional DNA Scanning by the Mismatch Repair Complex Msh2-Msh6"


Reference: Gorman, J., Chowdhury, A., Surtees, J.A., Shimada, J., Reichman, D.R., Alani, E. and Greene, E.C.
Molecular Cell 28:359-370 (2007)

December 11, 2007

John Majors

"Induction of Pluripotent Stem Cells from Adult Human Fibroblasts by Defined Factors"


Reference: Takahashi, K., Tanabe, K., Ohnuki, M., Narita, M. Ichisaka, T., Timoda, K. and Yamanaka, S.
Cell 131:861-872 (2007)

December 18, 2007

Jason Maynes

"Hole-ly Cow: Structural Studies on Immune Complement Pore
Formation"

References:

Hadders, M.A., Beringer, D.X. and Gros, P.

Structure of C8alpha-MACPF reveals mechanism of membrane attack in complement immune defense.

Science 317:1552-1554 (2007).

 

Rosado, C.J., Buckle, A.M., Law, R.H., Butcher, R.E., Kan, W.T., Bird, C.H., Ung, K., Browne, K.A., Baran, K., Bashtannyk-Puhalovich, T.A., Faux, N.G., Wong, W., Porter, C.J., Pike, R.N., Ellisdon, A.M., Pearce, M.C., Bottomley, S.P., Emsley, J., Smith, A.I., Rossjohn, J., Hartland, E.L., Voskoboinik, I., Trapani, J.A., Bird, P.I., Dunstone, M.A., and Whisstock, J.C.

A common fold mediates vertebrate defense and bacterial attack. Science 317:1548-1551 (2007).

 

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