› 7do7

X-ray diffraction
1.57Å resolution

Crystal structure of Azotobacter vinelandii L-rhamnose 1-dehydrogenase(NAD and L-rhamnose bound-form)

Released:
DOI: 10.2210/pdb7do7/pdb
PDB entry 7do7 coloured by chain, front view.
PDB entry 7do7 coloured by chain, side view.
PDB entry 7do7 coloured by chain, top view.
Source organism: Azotobacter vinelandii DJ
Primary publication:
Crystal structure of l-rhamnose 1-dehydrogenase involved in the nonphosphorylative pathway of l-rhamnose metabolism in bacteria.
Yoshiwara K, Watanabe S, Watanabe Y
FEBS Lett 595 637-646 (2021)
PMID: 33482017

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-111097 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
L-rhamnose 1-dehydrogenase (NAD(P)(+)) Chains: A, B
Molecule details ›
Chains: A, B
Length: 267 amino acids
Theoretical weight: 27.72 KDa
Source organism: Azotobacter vinelandii DJ
Expression system: Escherichia coli DH5[alpha]
UniProt:
  • Canonical: C1DMX5 (Residues: 2-256; Coverage: 100%)
Gene names: Avin_09160, LRA1
Sequence domains: Enoyl-(Acyl carrier protein) reductase

Ligands and Environments

2 bound ligands:
Ligand NAD 2 x NAD
Ligand RM4 4 x RM4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL45XU
Spacegroup: P21212
Unit cell:
a: 68.47Å b: 97.931Å c: 70.302Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.224 0.222 0.259
Expression system: Escherichia coli DH5[alpha]

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Citations

1 review citation

Structure and function of aldopentose catabolism enzymes involved in oxidative non-phosphorylative pathways.
Ren et al. (2022)
1 other article