› 1ogd

X-ray diffraction
1.95Å resolution

The Structure of Bacillus subtilis RbsD complexed with D-ribose

Released:
DOI: 10.2210/pdb1ogd/pdb
PDB entry 1ogd coloured by chain, front view.
PDB entry 1ogd coloured by chain, side view.
PDB entry 1ogd coloured by chain, top view.
Source organism: Bacillus subtilis
Primary publication:
Crystal structures of RbsD leading to the identification of cytoplasmic sugar-binding proteins with a novel folding architecture.
Kim MS, Shin J, Lee W, Lee HS, Oh BH
J Biol Chem 278 28173-80 (2003)
PMID: 12738765

Function and Biology Details

Reaction catalysed: 
Beta-D-ribopyranose = beta-D-ribofuranose
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153265 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
D-ribose pyranase Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 131 amino acids
Theoretical weight: 14.24 KDa
Source organism: Bacillus subtilis
UniProt:
  • Canonical: P36946 (Residues: 1-131; Coverage: 100%)
Gene names: BSU35930, rbsD
Sequence domains: RbsD / FucU transport protein family
Structure domains: RbsD-like domain

Ligands and Environments

2 bound ligands:
Ligand CL 2 x CL
Ligand RIP 5 x RIP
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: C2
Unit cell:
a: 123.515Å b: 108.656Å c: 83.308Å
α: 90° β: 128.68° γ: 90°
R-values:
R R work R free
0.198 0.198 0.211

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Citations

1 review citation

Microbial biochemistry, physiology, and biotechnology of hyperthermophilic Thermotoga species.
Conners et al. (2006)
12 other articles

3 mentions without citation

Calculating ensemble averaged descriptions of protein rigidity without sampling.
González et al. (2012)
2 more