› 4k8g

X-ray diffraction
1.25Å resolution

Crystal structure of D-Mannonate dehydratase from Novosphingobium aromaticivorans mutant (V161A, R163A, K165G, L166A, Y167G, Y168A, E169G)

Released:
DOI: 10.2210/pdb4k8g/pdb
PDB entry 4k8g coloured by chain, front view.
PDB entry 4k8g coloured by chain, side view.
PDB entry 4k8g coloured by chain, top view.
Source organism: Novosphingobium aromaticivorans DSM 12444
Entry authors: Lukk T, Wichelecki D, Gerlt JA, Nair SK

Function and Biology Details

Reaction catalysed: 
D-mannonate = 2-dehydro-3-deoxy-D-gluconate + H(2)O
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-107483 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-mannonate dehydratase Chain: A
Molecule details ›
Chain: A
Length: 422 amino acids
Theoretical weight: 46.97 KDa
Source organism: Novosphingobium aromaticivorans DSM 12444
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A4XF23 (Residues: 1-402; Coverage: 100%)
Gene names: Saro_3675, manD
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand GOL 1 x GOL
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: I422
Unit cell:
a: 125.77Å b: 125.77Å c: 119.74Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.141 0.141 0.148
Expression system: Escherichia coli BL21(DE3)

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