› 4z0h

X-ray diffraction
2.3Å resolution

X-ray structure of cytoplasmic glyceraldehyde-3-phosphate dehydrogenase (GapC1) complexed with NAD

Released:
DOI: 10.2210/pdb4z0h/pdb
PDB entry 4z0h coloured by chain, front view.
PDB entry 4z0h coloured by chain, side view.
PDB entry 4z0h coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Tuning Cysteine Reactivity and Sulfenic Acid Stability by Protein Microenvironment in Glyceraldehyde-3-Phosphate Dehydrogenases of Arabidopsis thaliana.
Zaffagnini M, Fermani S, Calvaresi M, Orrù R, Iommarini L, Sparla F, Falini G, Bottoni A, Trost P
Antioxid Redox Signal 24 502-17 (2016)
PMID: 26650776

Function and Biology Details

Reaction catalysed: 
D-glyceraldehyde 3-phosphate + phosphate + NAD(+) = 3-phospho-D-glyceroyl phosphate + NADH
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-150605 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glyceraldehyde-3-phosphate dehydrogenase GAPC1, cytosolic Chains: O, R
Molecule details ›
Chains: O, R
Length: 334 amino acids
Theoretical weight: 36.52 KDa
Source organism: Arabidopsis thaliana
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P25858 (Residues: 5-338; Coverage: 99%)
Gene names: At3g04120, GAPC, GAPC1, GAPDH, T6K12.26
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand NAD 2 x NAD
1 bound ligand:
Ligand SO4 7 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P6122
Unit cell:
a: 76.849Å b: 76.849Å c: 406.626Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.251 0.249 0.278
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Reactive oxygen species signalling in plant stress responses.
Mittler et al. (2022)
4 more

2 mentions without citation

Profiling of advanced glycation end products uncovers abiotic stress-specific target proteins in Arabidopsis.
Chaplin et al. (2019)
1 more