Structural Genomics of Minimal Organisms and Protein Fold Space |
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Authors: | Sung-Hou Kim Dong Hae Shin Jinyu Liu Vaheh Oganesyan Shengfeng Chen Qian Steven Xu Jeong-Sun Kim Debanu Das Ursula Schulze-Gahmen Stephen R Holbrook Elizabeth L Holbrook Bruno A Martinez Natalia Oganesyan Andy DeGiovanni Yun Lou Marlene Henriquez Candice Huang Jaru Jancarik Ramona Pufan In-Geol Choi John-Marc Chandonia Jingtong Hou Barbara Gold Hisao Yokota Steven E Brenner Paul D Adams Rosalind Kim |
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Institution: | (1) Department of Chemistry, University of California, Berkeley, California 94720-5230, USA;(2) Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA |
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Abstract: | The initial aim of the Berkeley Structural Genomics Center is to obtain a near-complete structural complement of two minimal
organisms, closely related pathogens Mycoplasma genitalium and M. pneumoniae. The former has fewer than 500 genes and the latter fewer than 700 genes. To achieve this goal, the current protein targets
have been selected starting with those predicted to be most tractable and likely to yield new structural and functional information.
During the past 3 years, the semi-automated structural genomics pipeline has been set up from cloning, expression, purification,
and ultimately to structural determination. The results from the pipeline substantially increased the coverage of the protein
fold space of M. pneumoniae and M. genitalium. Furthermore, about 1/2 of the structures of ‘unique’ protein sequences revealed new and novel folds, and over 2/3 of the
structures of previously annotated ‘hypothetical proteins’ inferred their molecular functions. |
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Keywords: | Berkeley Structural Genomics Center minimal organisms molecular function protein fold space structural genomics |
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