› 6eve

X-ray diffraction
2.05Å resolution

Structure of R175A S. cerevisiae Fdc1 with prFMN in the iminium form

Released:
DOI: 10.2210/pdb6eve/pdb
PDB entry 6eve coloured by chain, front view.
PDB entry 6eve coloured by chain, side view.
PDB entry 6eve coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
The role of conserved residues in Fdc decarboxylase in prenylated flavin mononucleotide oxidative maturation, cofactor isomerization, and catalysis.
Bailey SS, Payne KAP, Fisher K, Marshall SA, Cliff MJ, Spiess R, Parker DA, Rigby SEJ, Leys D
J Biol Chem 293 2272-2287 (2018)
PMID: 29259125

Function and Biology Details

Reaction catalysed: 
4-coumarate = 4-vinylphenol + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-169819 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ferulic acid decarboxylase 1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 509 amino acids
Theoretical weight: 56.97 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q03034 (Residues: 1-503; Coverage: 100%)
Gene names: D3703.2, FDC1, YDR539W
Sequence domains:
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces

Ligands and Environments

3 bound ligands:
Ligand 4LU 4 x 4LU
Ligand MN 5 x MN
Ligand K 3 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P21
Unit cell:
a: 117.48Å b: 98.64Å c: 118.17Å
α: 90° β: 97.24° γ: 90°
R-values:
R R work R free
0.185 0.183 0.226
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Formation and Cleavage of C-C Bonds by Enzymatic Oxidation-Reduction Reactions.
Guengerich et al. (2018)
4 more

2 mentions without citation

The role of conserved residues in Fdc decarboxylase in prenylated flavin mononucleotide oxidative maturation, cofactor isomerization, and catalysis.
Bailey et al. (2018)
1 more