› 4h6d

X-ray diffraction
2.9Å resolution

Crystal structure of PLP-soaked HMP synthase Thi5 from S. cerevisiae

Released:
DOI: 10.2210/pdb4h6d/pdb
PDB entry 4h6d coloured by chain, front view.
PDB entry 4h6d coloured by chain, side view.
PDB entry 4h6d coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
The last piece in the vitamin B1 biosynthesis puzzle: structural and functional insight into yeast 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate (HMP-P) synthase.
Coquille S, Roux C, Fitzpatrick TB, Thore S
J Biol Chem 287 42333-43 (2012)
PMID: 23048037

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155087 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase THI5 Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 346 amino acids
Theoretical weight: 39.42 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P43534 (Residues: 1-340; Coverage: 100%)
Gene names: MOL2, THI5, YFL058W
Sequence domains: NMT1/THI5 like
Structure domains: Periplasmic binding protein-like II

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P21
Unit cell:
a: 79.48Å b: 191.84Å c: 101.89Å
α: 90° β: 112.72° γ: 90°
R-values:
R R work R free
0.223 0.221 0.263
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Vitamin requirements and biosynthesis in Saccharomyces cerevisiae.
Perli et al. (2020)
3 more

2 mentions without citation

The last piece in the vitamin B1 biosynthesis puzzle: structural and functional insight into yeast 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate (HMP-P) synthase.
Coquille et al. (2012)
1 more