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Structure paper

TitleStructure, catalysis, chitin transport, and selective inhibition of chitin synthase.
Journal, issue, pagesNat Commun, Vol. 14, Issue 1, Page 4776, Year 2023
Publish dateAug 8, 2023
AuthorsDan-Dan Chen / Zhao-Bin Wang / Le-Xuan Wang / Peng Zhao / Cai-Hong Yun / Lin Bai /
PubMed AbstractChitin is one of the most abundant natural biopolymers and serves as a critical structural component of extracellular matrices, including fungal cell walls and insect exoskeletons. As a linear ...Chitin is one of the most abundant natural biopolymers and serves as a critical structural component of extracellular matrices, including fungal cell walls and insect exoskeletons. As a linear polymer of β-(1,4)-linked N-acetylglucosamine, chitin is synthesized by chitin synthases, which are recognized as targets for antifungal and anti-insect drugs. In this study, we determine seven different cryo-electron microscopy structures of a Saccharomyces cerevisiae chitin synthase in the absence and presence of glycosyl donor, acceptor, product, or peptidyl nucleoside inhibitors. Combined with functional analyses, these structures show how the donor and acceptor substrates bind in the active site, how substrate hydrolysis drives self-priming, how a chitin-conducting transmembrane channel opens, and how peptidyl nucleoside inhibitors inhibit chitin synthase. Our work provides a structural basis for understanding the function and inhibition of chitin synthase.
External linksNat Commun / PubMed:37553334 / PubMed Central
MethodsEM (single particle)
Resolution2.6 - 3.64 Å
Structure data

36855

8k3p

EMDB-36855, PDB-8k3p:
S. cerevisiae Chs1 in complex with polyoxin B
Method: EM (single particle) / Resolution: 3.64 Å

36856

8k3q

EMDB-36856, PDB-8k3q:
S. cerevisiae Chs1 in apo state
Method: EM (single particle) / Resolution: 2.6 Å

36857

8k3r

EMDB-36857, PDB-8k3r:
S. cerevisiae Chs1 in apo state incubated with GlcNAc
Method: EM (single particle) / Resolution: 3.51 Å

36859

8k3t

EMDB-36859, PDB-8k3t:
S. cerevisiae Chs1 in complex with UDP
Method: EM (single particle) / Resolution: 3.57 Å

36861

8k3u

EMDB-36861, PDB-8k3u:
S. cerevisiae Chs1 in complex with UDP and GlcNAc
Method: EM (single particle) / Resolution: 3.06 Å

36862

8k3v

EMDB-36862, PDB-8k3v:
S. cerevisiae Chs1 in complex with UDP-GlcNAc
Method: EM (single particle) / Resolution: 3.1 Å

36863

8k3w

EMDB-36863, PDB-8k3w:
S. cerevisiae Chs1 in complex with UDP-GlcNAc and GlcNAc
Method: EM (single particle) / Resolution: 2.91 Å

36864

8k3x

EMDB-36864, PDB-8k3x:
S. cerevisiae Chs1 in complex with Nikkomycin Z
Method: EM (single particle) / Resolution: 2.86 Å

Chemicals

ChemComp-POV:
(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate / phospholipid*YM

ChemComp-VDG:
(2S)-2-[[(2S,3S,4S)-5-aminocarbonyloxy-2-azanyl-3,4-bis(oxidanyl)pentanoyl]amino]-2-[(2R,3S,4R,5R)-5-[5-(hydroxymethyl)-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]ethanoic acid

ChemComp-MG:
Unknown entry

ChemComp-UDP:
URIDINE-5'-DIPHOSPHATE / UDP*YM

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose

ChemComp-UD1:
URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE

ChemComp-BGI:
(2S)-{[(2S,3S,4S)-2-amino-4-hydroxy-4-(5-hydroxypyridin-2-yl)-3-methylbutanoyl]amino}[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]acetic acid (non-preferred name) / medication, antifungal*YM

Source
  • saccharomyces cerevisiae (brewer's yeast)
  • saccharomyces cerevisiae s288c (yeast)
KeywordsANTIFUNGAL PROTEIN/INHIBITOR / ANTIFUNGAL PROTEIN-INHIBITOR complex

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