› 6egs

X-ray diffraction
2.7Å resolution

Crystal structure of the GalNAc-T2 F104S mutant in complex with UDP-GalNAc

Released:
DOI: 10.2210/pdb6egs/pdb
PDB entry 6egs coloured by chain, front view.
PDB entry 6egs coloured by chain, side view.
PDB entry 6egs coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural Analysis of a GalNAc-T2 Mutant Reveals an Induced-Fit Catalytic Mechanism for GalNAc-Ts.
de Las Rivas M, Coelho H, Diniz A, Lira-Navarrete E, Compañón I, Jiménez-Barbero J, Schjoldager KT, Bennett EP, Vakhrushev SY, Clausen H, Corzana F, Marcelo F, Hurtado-Guerrero R
Chemistry 24 8382-8392 (2018)
PMID: 29601100

Function and Biology Details

Reaction catalysed: 
UDP-N-acetyl-alpha-D-galactosamine + [protein]-L-serine = UDP + [protein]-3-O-(N-acetyl-alpha-D-galactosaminyl)-L-serine
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171225 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Polypeptide N-acetylgalactosaminyltransferase 2 soluble form Chains: A, B
Molecule details ›
Chains: A, B
Length: 503 amino acids
Theoretical weight: 57.37 KDa
Source organism: Homo sapiens
Expression system: Komagataella pastoris
UniProt:
  • Canonical: Q10471 (Residues: 75-571; Coverage: 87%)
Gene name: GALNT2
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand MN 2 x MN
Ligand UD2 2 x UD2
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P41212
Unit cell:
a: 154.036Å b: 154.036Å c: 109.823Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.207 0.206 0.221
Expression system: Komagataella pastoris

Quick links

Citations

4 review citations

Polypeptide GalNAc-Ts: from redundancy to specificity.
de Las Rivas et al. (2019)
3 more