› 2yvk

X-ray diffraction
2.4Å resolution

Crystal structure of 5-methylthioribose 1-phosphate isomerase product complex from Bacillus subtilis

Released:
DOI: 10.2210/pdb2yvk/pdb
PDB entry 2yvk coloured by chain, front view.
PDB entry 2yvk coloured by chain, side view.
PDB entry 2yvk coloured by chain, top view.
Source organism: Bacillus subtilis
Primary publication:
Crystal structure of 5-methylthioribose 1-phosphate isomerase product complex from Bacillus subtilis: implications for catalytic mechanism.
Tamura H, Saito Y, Ashida H, Inoue T, Kai Y, Yokota A, Matsumura H
Protein Sci 17 126-35 (2008)
PMID: 18156470

Function and Biology Details

Reaction catalysed: 
S-methyl-5-thio-alpha-D-ribose 1-phosphate = S-methyl-5-thio-D-ribulose 1-phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128323 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Methylthioribose-1-phosphate isomerase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 374 amino acids
Theoretical weight: 41.21 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O31662 (Residues: 1-353; Coverage: 100%)
Gene names: BSU13550, mtnA, ykrS
Sequence domains: Initiation factor 2 subunit family
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand MRU 4 x MRU
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL44XU
Spacegroup: P21
Unit cell:
a: 79.987Å b: 84.444Å c: 95.299Å
α: 90° β: 92.34° γ: 90°
R-values:
R R work R free
0.212 0.212 0.257
Expression system: Escherichia coli BL21(DE3)

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Citations

2 review citations

Metabolic characteristics and importance of the universal methionine salvage pathway recycling methionine from 5'-methylthioadenosine.
Albers E. (2009)
1 more

4 mentions without citation

Crystal structure of 5-methylthioribose 1-phosphate isomerase product complex from Bacillus subtilis: implications for catalytic mechanism.
Tamura et al. (2008)
3 more