› 1nzc

X-ray diffraction
1.8Å resolution

The high resolution structures of RmlC from Streptococcus suis in complex with dTDP-D-xylose

Released:
DOI: 10.2210/pdb1nzc/pdb
PDB entry 1nzc coloured by chain, front view.
PDB entry 1nzc coloured by chain, side view.
PDB entry 1nzc coloured by chain, top view.
Source organism: Streptococcus suis
Primary publication:
High-resolution structures of RmlC from Streptococcus suis in complex with substrate analogs locate the active site of this class of enzyme.
Dong C, Major LL, Allen A, Blankenfeldt W, Maskell D, Naismith JH
Structure 11 715-23 (2003)
PMID: 12791259

Function and Biology Details

Reaction catalysed: 
dTDP-4-dehydro-6-deoxy-alpha-D-glucose = dTDP-4-dehydro-beta-L-rhamnose
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-184524 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
dTDP-4-dehydrorhamnose 3,5-epimerase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 197 amino acids
Theoretical weight: 22.49 KDa
Source organism: Streptococcus suis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8GIQ0 (Residues: 1-197; Coverage: 100%)
Gene names: ERS156295_00910, rfbC, rmlC
Sequence domains: dTDP-4-dehydrorhamnose 3,5-epimerase
Structure domains: Jelly Rolls

Ligands and Environments

2 bound ligands:
Ligand TDX 4 x TDX
Ligand NI 2 x NI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX14.1
Spacegroup: P21
Unit cell:
a: 50.85Å b: 140.866Å c: 53.699Å
α: 90° β: 92.72° γ: 90°
R-values:
R R work R free
0.167 0.164 0.216
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Bacterial glycobiology: rhamnose-containing cell wall polysaccharides in Gram-positive bacteria.
Mistou et al. (2016)
5 more

1 mention without citation

Structure-based phylogeny as a diagnostic for functional characterization of proteins with a cupin fold.
Agarwal et al. (2009)