› 6xfi

X-ray diffraction
2Å resolution

Crystal Structures of beta-1,4-N-Acetylglucosaminyltransferase 2 (POMGNT2): Structural Basis for Inherited Muscular Dystrophies

Released:
DOI: 10.2210/pdb6xfi/pdb
PDB entry 6xfi coloured by chain, front view.
PDB entry 6xfi coloured by chain, side view.
PDB entry 6xfi coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structures of β-1,4-N-acetylglucosaminyltransferase 2: structural basis for inherited muscular dystrophies.
Yang JY, Halmo SM, Praissman J, Chapla D, Singh D, Wells L, Moremen KW, Lanzilotta WN
Acta Crystallogr D Struct Biol 77 486-495 (2021)
PMID: 33825709

Function and Biology Details

Reaction catalysed: 
UDP-N-acetyl-alpha-D-glucosamine + 3-O-(alpha-D-mannosyl)-L-threonyl-[protein] = UDP + 3-O-(N-acetyl-beta-D-glucosaminyl-(1->4)-alpha-D-mannosyl)-L-threonyl-[protein]
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-185453 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Protein O-linked-mannose beta-1,4-N-acetylglucosaminyltransferase 2 Chain: A
Molecule details ›
Chain: A
Length: 529 amino acids
Theoretical weight: 61.06 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q8NAT1 (Residues: 52-580; Coverage: 91%)
Gene names: AGO61, C3orf39, EOGTL, GTDC2, POMGNT2
Sequence domains: Glycosyltransferase 61

Ligands and Environments

3 bound ligands:
Ligand UDP 1 x UDP
Ligand NAG 1 x NAG
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P4212
Unit cell:
a: 129.84Å b: 129.84Å c: 81.56Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.199 0.198 0.227
Expression system: Homo sapiens

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Citations

1 citations in other articles

Analysis of Tumor Glycosylation Characteristics and Implications for Immune Checkpoint Inhibitor's Efficacy for Breast Cancer.
Lv et al. (2022)

1 mention without citation

Crystal structures of β-1,4-N-acetylglucosaminyltransferase 2: structural basis for inherited muscular dystrophies.
Yang et al. (2021)