%0 Journal Article
%A Ngo, Ho-Phuong-Thuy
%A Ho, Thien-Hoang
%A Lee, Inho
%A Tran, Huyen-Thi
%A Sur, Bookyo
%A Kim, Seunghwan
%A Kim, Jeong-Gu
%A Ahn, Yeh-Jin
%A Cha, Sun-Shin
%A Kang, Lin-Woo
%D 2016
%T Crystal Structures of Peptide Deformylase from Rice
Pathogen Xanthomonas oryzae pv. oryzae in Complex with Substrate Peptides, Actinonin, and Fragment Chemical
Compounds
%U https://acs.figshare.com/articles/journal_contribution/Crystal_Structures_of_Peptide_Deformylase_from_Rice_Pathogen_i_Xanthomonas_oryzae_i_pv_i_oryzae_i_in_Complex_with_Substrate_Peptides_Actinonin_and_Fragment_Chemical_Compounds/3846567
%R 10.1021/acs.jafc.6b02976.s001
%2 https://acs.figshare.com/ndownloader/files/6014217
%K Peptide deformylase
%K Substrate Peptides
%K substrate-binding pocket
%K crystal structures
%K XoPDF
%K 1.9 Å resolution
%K Fragment Chemical Compounds Xanthomonas oryzae pv
%K rice cultivation
%K PDF inhibitor actinonin-bound structure
%K fragment chemical molecules
%K fragment chemical compounds
%K Xoo PDF
%K Peptide Deformylase
%K Rice Pathogen Xanthomonas oryzae pv
%K formyl group
%K fragment chemical-bound structures
%K crystal Structures
%X Xanthomonas
oryzae pv. oryzae (Xoo) causes bacterial
blight on rice; this species is one of the
most destructive pathogenic bacteria in rice cultivation worldwide.
Peptide deformylase (PDF) catalyzes the removal of the N-formyl group from the N-terminus of newly synthesized polypeptides
in bacterial cells and is an important target to develop antibacterial
agents. We determined crystal structures of Xoo PDF (XoPDF) at up
to 1.9 Å resolution, which include apo, two substrate-bound (methionine-alanine
or methionine-alanine-serine), an inhibitor-bound (actinonin), and
six fragment chemical-bound structures. Six fragment chemical compounds
were bound in the substrate-binding pocket. The fragment chemical-bound
structures were compared to the natural PDF inhibitor actinonin-bound
structure. The fragment chemical molecules will be useful to design
an inhibitor specific to XoPDF and a potential pesticide against Xoo.
%I ACS Publications