› 5luc

X-ray diffraction
1.8Å resolution

Crystal structure of the D183N variant of human Alanine:Glyoxylate Aminotransferase major allele (AGT-Ma) at 1.8 Angstrom; internal aldimine with PLP in the active site

Released:
DOI: 10.2210/pdb5luc/pdb
PDB entry 5luc coloured by chain, front view.
PDB entry 5luc coloured by chain, side view.
PDB entry 5luc coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Radiation damage at the active site of human alanine:glyoxylate aminotransferase reveals that the cofactor position is finely tuned during catalysis.
Giardina G, Paiardini A, Montioli R, Cellini B, Voltattorni CB, Cutruzzolà F
OpenAccess logo Sci Rep 7 11704 (2017)
PMID: 28916765

Function and Biology Details

Reactions catalysed: 
L-alanine + glyoxylate = pyruvate + glycine
L-serine + pyruvate = 3-hydroxypyruvate + L-alanine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149289 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alanine--glyoxylate aminotransferase Chains: A, B, E, G, M, N, S, T
Molecule details ›
Chains: A, B, E, G, M, N, S, T
Length: 403 amino acids
Theoretical weight: 44.28 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P21549 (Residues: 1-392; Coverage: 100%)
Gene names: AGT1, AGXT, SPAT
Sequence domains: Aminotransferase class-V
Structure domains:

Ligands and Environments


Cofactor: Ligand PLP 8 x PLP
1 bound ligand:
Ligand BTB 8 x BTB
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P212121
Unit cell:
a: 127.599Å b: 141.107Å c: 256.117Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.165 0.163 0.192
Expression system: Escherichia coli

Quick links

Citations

6 citation in other articles

The catalytic activity of serine hydroxymethyltransferase is essential for de novo nuclear dTMP synthesis in lung cancer cells.
Giardina et al. (2018)
5 more

4 mentions without citation

Defining a Novel Role for the Coxsackievirus and Adenovirus Receptor in Human Adenovirus Serotype 5 Transduction In Vitro in the Presence of Mouse Serum.
Lopez-Gordo et al. (2017)
3 more