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Natarajan S.,Konkuk University | Kim J.-K.,Konkuk University | Jung T.-K.,Konkuk University | Doan T.T.N.,Konkuk University | And 11 more authors.
Molecules and Cells | Year: 2012

Xanthomonas oryzae pv. oryzae (Xoo) is a plant bacterial pathogen that causes bacterial blight (BB) disease, resulting in serious production losses of rice. The crystal structure of malonyl CoA-acyl carrier protein transacylase (XoMCAT), encoded by the gene fabD (Xoo0880) from Xoo, was determined at 2.3 Å resolution in complex with N-cyclohexyl-2-aminoethansulfonic acid. Malonyl CoA-acyl carrier protein transacylase transfers malonyl group from malonyl CoA to acyl carrier protein (ACP). The transacylation step is essential in fatty acid synthesis. Based on the rationale, XoMCAT has been considered as a target for antibacterial agents against BB. Protein-protein interaction between XoMCAT and ACP was also extensively investigated using computational docking, and the proposed model revealed that ACP bound to the cleft between two XoMCAT subdomains. © 2012 KSMCB.


Ngo H.-P.-T.,Konkuk University | Kim J.-K.,Konkuk University | Kim S.-H.,Konkuk University | Pham T.-V.,Konkuk University | And 8 more authors.
Acta Crystallographica Section F: Structural Biology and Crystallization Communications | Year: 2012

Cystathionine -synthase (CGS) catalyzes the first step in the transsulfuration pathway leading to the formation of cystathionine from O-succinylhomoserine and l - cysteine through a -replacement reaction. As an antibacterial drug target against Xanthomonas oryzae pv. oryzae (Xoo), CGS from Xoo (XometB) was cloned, expressed, purified and crystallized. The XometB crystal diffracted to 2.4 Å resolution and belonged to the tetragonal space group I41, with unit-cell parameters a = b = 165.4, c = 241.7 Å. There were four protomers in the asymmetric unit, with a corresponding solvent content of 73.9%. © 2012. © 2012 International Union of Crystallography All rights reserved.


Kim S.,Konkuk University | Kim S.,South Korean National Institute of Animal Science | Nguyen T.-D.-H.,Konkuk University | Lee J.,Sangmyung University | And 10 more authors.
Journal of Microbiology and Biotechnology | Year: 2013

X is a putative transcription activator-like effector (TALE) in Xanthomonas oryzae pv. oryzae (Xoo). Xo2276 was expressed with a TAP-tag at the C-terminus in Xoo cells to enable quantitative analysis of protein expression and secretion. Nearly all TAP-tagged Xo2276 existed in an insoluble form; addition of rice leaf extracts from a Xoo-susceptible rice cultivar, Milyang23, significantly stimulated secretion of TAP-tagged Xo2276 into the medium. In a T3SS-defective Xoo mutant strain, secretion of TAP-tagged Xo2276 was blocked. Xo2276 is a Xoo ortholog of Xanthomonas campestris pv. vesicatoria (Xcv) AvrBs3 and contains a conserved DNA-binding domain (DBD), which includes 19. 5 tandem repeats of 34 amino acids. Xo2276-DBD was expressed in E. coli and purified. Direct in vitro recognition of Xo2276-DBD on a putative target DNA sequence was confirmed using an electrophoretic mobility shift assay. This is the first study measuring the homologous expression and secretion of Xo2276 in vitro using rice leaf extract and its direct in vitro binding to the specific target DNA sequence. © the Korean Society for Microbiology and Biotechnology.


Hong M.-K.,Konkuk University | Lee J.H.,Myongji University | Kwon D.B.,Myongji University | Kim J.-K.,Konkuk University | And 6 more authors.
Acta Crystallographica Section F: Structural Biology and Crystallization Communications | Year: 2012

GIM-1 is a member of the class B carbapenemases (metallo-β-lactamases; MBLs) and has a wide spectrum of activity against carbapenems, penicillins and extended-spectrum cephalosporins, but not aztreonam. GIM-1 presents an enormous challenge to infection control, particularly in the eradication of Gram-negative pathogens including Enterobacteriaceae, Pseudomonas aeruginosa, Acinetobacter baumannii and nonfermenters. There are presently few or no drugs in late-stage development for these pathogens and GIM-1 is a potential target for the development of antimicrobial agents against pathogens producing MBLs. In this study, GIM-1 was cloned, overexpressed and crystallized. The GIM-1 crystals diffracted to 1.4 Å resolution and belonged to the orthorhombic space group P212121, with unit-cell parameters a = 38.5, b = 67.6, c = 72.8 Å. One molecule is present in the asymmetric unit, with a corresponding VM of 1.69 Å3 Da -1 and a solvent content of 27.1%. © 2012 International Union of Crystallography.


Hong M.-K.,Konkuk University | Lee J.J.,Myongji University | Wu X.,Myongji University | Kim J.-K.,Konkuk University | And 6 more authors.
Acta Crystallographica Section F: Structural Biology and Crystallization Communications | Year: 2012

SFC-1, a class A carbapenemase that confers antibiotic resistance, hydrolyzes the Β-lactam rings of Β-lactam antibiotics (carbapenems, cephalosporins, penicillins and aztreonam). SFC-1 presents an enormous challenge to infection control, particularly in the eradication of Gram-negative pathogens. As SFC-1 exhibits a remarkably broad substrate range, including Β-lactams of all classes, the enzyme is a potential target for the development of antimicrobial agents against pathogens producing carbapenemases. In this study, SFC-1 was cloned, overexpressed, purified and crystallized. The SFC-1 crystal diffracted to 1.6 Å resolution and belonged to the orthorhombic space group P212121, with unit-cell parameters a = 65.8, b = 68.3, c = 88.8 Å. Two molecules are present in the asymmetric unit, with a corresponding VM of 1.99 Å3 Da-1 and a solvent content of 38.1%. © 2012 International Union of Crystallography.

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