› 2yi1

X-ray diffraction
2.15Å resolution

Crystal structure of N-Acetylmannosamine kinase in complex with N- acetyl mannosamine 6-phosphate and ADP.

Released:
DOI: 10.2210/pdb2yi1/pdb
PDB entry 2yi1 coloured by chain, front view.
PDB entry 2yi1 coloured by chain, side view.
PDB entry 2yi1 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structures of N-acetylmannosamine kinase provide insights into enzyme activity and inhibition.
Martinez J, Nguyen LD, Hinderlich S, Zimmer R, Tauberger E, Reutter W, Saenger W, Fan H, Moniot S
J Biol Chem 287 13656-65 (2012)
PMID: 22343627

Function and Biology Details

Reactions catalysed: 
ATP + N-acyl-D-mannosamine = ADP + N-acyl-D-mannosamine 6-phosphate
UDP-N-acetyl-alpha-D-glucosamine + H(2)O = N-acetyl-D-mannosamine + UDP
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-195078 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Bifunctional UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase Chain: A
Molecule details ›
Chain: A
Length: 343 amino acids
Theoretical weight: 36.64 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9Y223 (Residues: 406-720; Coverage: 44%)
Gene names: GLCNE, GNE, IBM2
Sequence domains: ROK family
Structure domains: Nucleotidyltransferase; domain 5

Ligands and Environments

10 bound ligands:
Ligand BMX 1 x BMX
Ligand BM3 1 x BM3
Ligand MG 1 x MG
Ligand CA 2 x CA
Ligand 2PE 1 x 2PE
Ligand PG4 1 x PG4
Ligand EDO 4 x EDO
Ligand ACT 1 x ACT
Ligand ADP 1 x ADP
Ligand ZN 1 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P41212
Unit cell:
a: 90.7Å b: 90.7Å c: 101.49Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.168 0.167 0.191
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

Mutation update for GNE gene variants associated with GNE myopathy.
Celeste et al. (2014)
2 more

3 mentions without citation

Crystal structures of N-acetylmannosamine kinase provide insights into enzyme activity and inhibition.
Martinez et al. (2012)
2 more