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Structural Genomics of Minimal Organisms: Pipeline and Results

  • Protocol
Structural Proteomics

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 426))

 

The initial objective of the Berkeley Structural Genomics Center was to obtain a near complete three-dimensional (3D) structural information of all soluble proteins of two minimal organisms, closely related pathogens Mycoplasma genitalium and M. pneumoniae. The former has fewer than 500 genes and the latter has fewer than 700 genes. A semiautomated structural genomics pipeline was set up from target selection, cloning, expression, purification, and ultimately structural determination. At the time of this writing, structural information of more than 93% of all soluble proteins of M. genitalium is avail able. This chapter summarizes the approaches taken by the authors' center.

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Acknowledgments

This work is supported by grants from the NIH (1-P50-GM62412 and 1-R01-GM073109). The authors are grateful to a large number of colleagues who participated in various aspects of BSGC's PSI-1 program, such as high throughput cloning (H. Yokota and B. Gold) and expression (M. Henriquez and B. Martinez), large-scale production and characterization of proteins (C. Huang, Y. Lou, N. Oganesyan, and A. DeGiovanni), crystallization (J. Jancarik, I. Ankoudinova, and H. Hyun) and structure determination (D. Das, J. Liu, V. Oganesyan, and Q. Xian), and structural space mapping (S. Jun, G. Sims, J. Hou, and I.-G. Choi), with the guidance of S. Brenner, D. Wemmer, T. Earnest, D. McKay, and C. Hutchison, Jr.

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Authors and Affiliations

  1. Berkeley Structural Genomics Center, Lawrence Berkeley National Laboratory, and Department of Chemistry, University of California, Berkeley, California, USA

    Sung-Hou Kim, Dong-Hae Shin, Rosalind Kim, Paul Adams & John-Marc Chandonia

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  1. Sung-Hou Kim
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  2. Dong-Hae Shin
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  3. Rosalind Kim
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  4. Paul Adams
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Editors and Affiliations

  1. School of Molecular and Microbial Sciences, The University of Queensland, Brisbane, Queensland, Australia

    Bostjan Kobe

  2. School of Molecular and Microbial Biosciences, University of Sydney, Sydney, Australia

    Mitchell Guss

  3. School of Molecular and Microbial Sciences and Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, Australia

    Thomas Huber

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© 2008 Humana Press, a part of Springer Science+Business Media, LLC

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Kim, SH., Shin, DH., Kim, R., Adams, P., Chandonia, JM. (2008). Structural Genomics of Minimal Organisms: Pipeline and Results. In: Kobe, B., Guss, M., Huber, T. (eds) Structural Proteomics. Methods in Molecular Biology™, vol 426. Humana Press. https://doi.org/10.1007/978-1-60327-058-8_32

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  • DOI: https://doi.org/10.1007/978-1-60327-058-8_32

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-809-6

  • Online ISBN: 978-1-60327-058-8

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