title: Structural genomics of minimal organisms and protein fold space.
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.
authors.affiliation: Department of Chemistry, University of California, Berkeley, 94720-5230, USA. SHKim@cchem.berkeley.edu
authors.forename: Sung-Hou
authors.initials: SH
authors.lastname: Kim
authors.forename: Dong Hae
authors.initials: DH
authors.lastname: Shin
authors.forename: Jinyu
authors.initials: J
authors.lastname: Liu
authors.forename: Vaheh
authors.initials: V
authors.lastname: Oganesyan
authors.forename: Shengfeng
authors.initials: S
authors.lastname: Chen
authors.forename: Qian Steven
authors.initials: QS
authors.lastname: Xu
authors.forename: Jeong-Sun
authors.initials: JS
authors.lastname: Kim
authors.forename: Debanu
authors.initials: D
authors.lastname: Das
authors.forename: Ursula
authors.initials: U
authors.lastname: Schulze-Gahmen
authors.forename: Stephen R
authors.initials: SR
authors.lastname: Holbrook
authors.forename: Elizabeth L
authors.initials: EL
authors.lastname: Holbrook
authors.forename: Bruno A
authors.initials: BA
authors.lastname: Martinez
authors.forename: Natalia
authors.initials: N
authors.lastname: Oganesyan
authors.forename: Andy
authors.initials: A
authors.lastname: DeGiovanni
authors.forename: Yun
authors.initials: Y
authors.lastname: Lou
authors.forename: Marlene
authors.initials: M
authors.lastname: Henriquez
authors.forename: Candice
authors.initials: C
authors.lastname: Huang
authors.forename: Jaru
authors.initials: J
authors.lastname: Jancarik
authors.forename: Ramona
authors.initials: R
authors.lastname: Pufan
authors.forename: In-Geol
authors.initials: IG
authors.lastname: Choi
authors.forename: John-Marc
authors.initials: JM
authors.lastname: Chandonia
authors.forename: Jingtong
authors.initials: J
authors.lastname: Hou
authors.forename: Barbara
authors.initials: B
authors.lastname: Gold
authors.forename: Hisao
authors.initials: H
authors.lastname: Yokota
authors.forename: Steven E
authors.initials: SE
authors.lastname: Brenner
authors.forename: Paul D
authors.initials: PD
authors.lastname: Adams
authors.forename: Rosalind
authors.initials: R
authors.lastname: Kim
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics*; D003001:Cloning, Molecular; D003460:Crystallization; D016680:Genome, Bacterial / Q000235:genetics*; D008958:Models, Molecular; D045704:Mycoplasma genitalium / Q000235:genetics*; D009177:Mycoplasma pneumoniae / Q000235:genetics*; D017510:Protein Folding; D040901:Proteomics / Q000379:methods*
chemical_list: D001426:Bacterial Proteins