Structural genomics of minimal organisms and protein fold space.
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.
Kim
Sung-Hou
SH
Department of Chemistry, University of California, Berkeley, 94720-5230, USA. SHKim@cchem.berkeley.edu
Shin
Dong Hae
DH
Liu
Jinyu
J
Oganesyan
Vaheh
V
Chen
Shengfeng
S
Xu
Qian Steven
QS
Kim
Jeong-Sun
JS
Das
Debanu
D
Schulze-Gahmen
Ursula
U
Holbrook
Stephen R
SR
Holbrook
Elizabeth L
EL
Martinez
Bruno A
BA
Oganesyan
Natalia
N
DeGiovanni
Andy
A
Lou
Yun
Y
Henriquez
Marlene
M
Huang
Candice
C
Jancarik
Jaru
J
Pufan
Ramona
R
Choi
In-Geol
IG
Chandonia
John-Marc
JM
Hou
Jingtong
J
Gold
Barbara
B
Yokota
Hisao
H
Brenner
Steven E
SE
Adams
Paul D
PD
Kim
Rosalind
R
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*
D001426:Bacterial Proteins