› 3d47

X-ray diffraction
1.8Å resolution

Crystal structure of L-rhamnonate dehydratase from Salmonella typhimurium complexed with Mg and D-malate

Released:
DOI: 10.2210/pdb3d47/pdb
PDB entry 3d47 coloured by chain, front view.
PDB entry 3d47 coloured by chain, side view.
PDB entry 3d47 coloured by chain, top view.
Source organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Entry authors: Fedorov AA, Fedorov EV, Sauder JM, Burley SK, Gerlt JA, Almo SC, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
homo dimer (preferred)
homo octamer
Assembly name:
PDBe Complex ID:
PDB-CPX-187302 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
L-rhamnonate dehydratase Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 405 amino acids
Theoretical weight: 44.76 KDa
Source organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8ZNF9 (Residues: 1-405; Coverage: 100%)
Gene names: STM2291, rhmD, yfaW
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand MG 8 x MG
Ligand MLT 8 x MLT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P21
Unit cell:
a: 98.222Å b: 122.003Å c: 141.35Å
α: 90° β: 108.24° γ: 90°
R-values:
R R work R free
0.205 0.202 0.232
Expression system: Escherichia coli

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