› 6i34

X-ray diffraction
2.1Å resolution

Crystal structure of Neanderthal glycine decarboxylase (P-protein)

Released:
DOI: 10.2210/pdb6i34/pdb
PDB entry 6i34 coloured by chain, front view.
PDB entry 6i34 coloured by chain, side view.
PDB entry 6i34 coloured by chain, top view.
Source organism: Homo sapiens neanderthalensis
Entry authors: Van Laer B, Kapp U, Leonard G, Mueller-Dieckmann C

Function and Biology Details

Reaction catalysed: 
Glycine + [glycine-cleavage complex H protein]-N(6)-lipoyl-L-lysine = [glycine-cleavage complex H protein]-S-aminomethyl-N(6)-dihydrolipoyl-L-lysine + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149943 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycine dehydrogenase (decarboxylating), mitochondrial Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 984 amino acids
Theoretical weight: 109.55 KDa
Source organism: Homo sapiens neanderthalensis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P23378 (Residues: 45-1020; Coverage: 96%)
Gene names: GCSP, GLDC
Sequence domains:

Ligands and Environments


Cofactor: Ligand PLP 4 x PLP
3 bound ligands:
Ligand EDO 11 x EDO
Ligand PEG 5 x PEG
Ligand GOL 5 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: P21
Unit cell:
a: 86.873Å b: 124.381Å c: 201.304Å
α: 90° β: 98.57° γ: 90°
R-values:
R R work R free
0.218 0.216 0.243
Expression system: Escherichia coli BL21(DE3)

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