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Structure paper

TitleStructural and Functional Analyses of the Tridomain-Nonribosomal Peptide Synthetase FmoA3 for 4-Methyloxazoline Ring Formation.
Journal, issue, pagesAngew Chem Int Ed Engl, Vol. 60, Issue 26, Page 14554-14562, Year 2021
Publish dateJun 21, 2021
AuthorsYohei Katsuyama / Kaoru Sone / Ayaka Harada / Seiji Kawai / Naoki Urano / Naruhiko Adachi / Toshio Moriya / Masato Kawasaki / Kazuo Shin-Ya / Toshiya Senda / Yasuo Ohnishi /
PubMed AbstractNonribosomal peptide synthetases (NRPSs) are attractive targets for bioengineering to generate useful peptides. FmoA3 is a single modular NRPS composed of heterocyclization (Cy), adenylation (A), and ...Nonribosomal peptide synthetases (NRPSs) are attractive targets for bioengineering to generate useful peptides. FmoA3 is a single modular NRPS composed of heterocyclization (Cy), adenylation (A), and peptidyl carrier protein (PCP) domains. It uses α-methyl-l-serine to synthesize a 4-methyloxazoline ring, probably with another Cy domain in the preceding module FmoA2. Here, we determined the head-to-tail homodimeric structures of FmoA3 by X-ray crystallography (apo-form, with adenylyl-imidodiphosphate and α-methyl-l-seryl-AMP) and cryogenic electron microscopy single particle analysis, and performed site-directed mutagenesis experiments. The data revealed that α-methyl-l-serine can be accommodated in the active site because of the extra space around Ala688. The Cy domains of FmoA2 and FmoA3 catalyze peptide bond formation and heterocyclization, respectively. FmoA3's Cy domain seems to lose its donor PCP binding activity. The collective data support a proposed catalytic cycle of FmoA3.
External linksAngew Chem Int Ed Engl / PubMed:33783097
MethodsEM (single particle) / X-ray diffraction
Resolution2.45 - 4.1 Å
Structure data

EMDB-30440:
Cryo-EM analysis of the nonribosomal peptide synthetase, FmoA3
Method: EM (single particle) / Resolution: 3.55 Å

PDB-6lta:
Crystal Structure of Nonribosomal peptide synthetases (NRPS), FmoA3 (S1046A)
Method: X-RAY DIFFRACTION / Resolution: 2.45 Å

PDB-6ltb:
Crystal Structure of Nonribosomal peptide synthetases (NRPS), FmoA3 (S1046A)-AMPPNP bound form
Method: X-RAY DIFFRACTION / Resolution: 3.1 Å

PDB-6ltc:
Crystal Structure of Nonribosomal peptide synthetases (NRPS), FmoA3 (S1046A)-alpha-methyl-L-serine-AMP bound form
Method: X-RAY DIFFRACTION / Resolution: 3.3 Å

PDB-6ltd:
Crystal Structure of Nonribosomal peptide synthetases (NRPS), FmoA3 (S1046A)-alpha-methyl-L-serine-AMP bound form
Method: X-RAY DIFFRACTION / Resolution: 4.1 Å

Chemicals

ChemComp-AKR:
ACRYLIC ACID / Acrylic acid

ChemComp-HOH:
WATER / Water

ChemComp-ANP:
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER / AMP-PNP, energy-carrying molecule analogue*YM

ChemComp-AMP:
ADENOSINE MONOPHOSPHATE / AMP*YM / Adenosine monophosphate

ChemComp-EW6:
alpha-methyl-L-serine

ChemComp-SO4:
SULFATE ION / Sulfate

ChemComp-CL:
Unknown entry / Chloride

Source
  • streptomyces sp. sp080513ge-23 (bacteria)
KeywordsBIOSYNTHETIC PROTEIN / Nonribosomal peptide synthetases (NRPS) / JBIR-34 and -35

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