9EP0 image
Deposition Date 2024-03-16
Release Date 2025-10-01
Last Version Date 2026-04-15
Entry Detail
PDB ID:
9EP0
Keywords:
Title:
Dolichyl phosphate mannose synthase in complex with donor (GDP-Man) and traces of acceptor (Dol55P) and product (Dol55P-Man)
Biological Source:
Source Organism(s):
Expression System(s):
Method Details:
Experimental Method:
Resolution:
2.90 Å
R-Value Free:
0.30
R-Value Work:
0.23
R-Value Observed:
0.24
Space Group:
C 2 2 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dolichol monophosphate mannos
Gene (Uniprot):PF0058
Chain IDs:A
Chain Length:374
Number of Molecules:1
Biological Source:Pyrococcus furiosus DSM 3638
Primary Citation
Crystallographic data for Pyrococcus furiosus dolichylphosphate mannose synthase suggest that the enzyme could flip its glycolipid product.
Sci Rep 16 ? ? (2026)
PMID: 41826688 DOI: 10.1038/s41598-026-44343-5

Abstact

Dolichylphosphate mannose synthase (DPMS) performs an essential function by synthesizing the activated lipid-linked mannose intermediate used in protein glycosylation pathways. In eukaryotes and archaea, DPMS catalyzes the transfer of mannose from GDP-mannose to dolichylphosphate to generate dolichylphosphate mannose (Dol-P-Man). Type-III DPMS from Pyrococcus furiosus (PfDPMS) has a catalytic domain attached to a GtrA-like transmembrane (TM) domain with an unusual topology. Here, we present crystallographic data from a crystal complex determined from an enzymatic reaction mixture that provides detailed information about donor- and acceptor binding in the active site prior to mannosyl transfer. We also present a new, unexpected structural state for the TM domain in which a Dol-P-Man molecule is bound "upside-down" with its mannosylphosphate headgroup positioned in a polar pocket between the TM helices. By generating a panel of TM-domain mutants, we confirm that the TM domain does not participate directly in the catalysis of mannosyl transfer and discuss the possibility of this domain providing moonlighting function to PfDPMS by translocating the Dol-P-Man product to the cell exterior.

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