› 6zfn

X-ray diffraction
1.1Å resolution

Structure of an inactive E404Q variant of the catalytic domain of human endo-alpha-mannosidase MANEA in complex with 1-methyl alpha-1,2-mannobiose

Released:
DOI: 10.2210/pdb6zfn/pdb
PDB entry 6zfn coloured by chain, front view.
PDB entry 6zfn coloured by chain, side view.
PDB entry 6zfn coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of human endo-α-1,2-mannosidase (MANEA), an antiviral host-glycosylation target.
Sobala ŁF, Fernandes PZ, Hakki Z, Thompson AJ, Howe JD, Hill M, Zitzmann N, Davies S, Stamataki Z, Butters TD, Alonzi DS, Williams SJ, Davies GJ
OpenAccess logo Proc Natl Acad Sci U S A 117 29595-29601 (2020)
PMID: 33154157

Function and Biology Details

Reaction catalysed: 
GlcMan(9)GlcNAc(2)-[protein] + H(2)O = Man(8)GlcNAc(2)-[protein] (isomer 8A(1,2,3)B(1,2)) + alpha-D-glucosyl-(1->3)-alpha-D-mannopyranose
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178277 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Glycoprotein endo-alpha-1,2-mannosidase Chain: AAA
Molecule details ›
Chain: AAA
Length: 382 amino acids
Theoretical weight: 44.78 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5SRI9 (Residues: 98-462; Coverage: 79%)
Gene name: MANEA
Sequence domains: Glycosyl hydrolase family 99

Ligands and Environments

Carbohydrate polymer : NEW Components: MMA, MAN
Carbohydrate polymer
1 bound ligand:
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P21
Unit cell:
a: 42.752Å b: 81.68Å c: 52.994Å
α: 90° β: 92.934° γ: 90°
R-values:
R R work R free
0.107 0.106 0.128
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 citation in other articles

Inhibition of Protein N-Glycosylation Blocks SARS-CoV-2 Infection.
Casas-Sanchez et al. (2021)
4 more