› 6eem

X-ray diffraction
2.61Å resolution

Crystal structure of Papaver somniferum tyrosine decarboxylase in complex with L-tyrosine

Released:
DOI: 10.2210/pdb6eem/pdb
PDB entry 6eem coloured by chain, front view.
PDB entry 6eem coloured by chain, side view.
PDB entry 6eem coloured by chain, top view.
Source organism: Papaver somniferum
Primary publication:
Structural basis for divergent and convergent evolution of catalytic machineries in plant aromatic amino acid decarboxylase proteins.
Torrens-Spence MP, Chiang YC, Smith T, Vicent MA, Wang Y, Weng JK
Proc Natl Acad Sci U S A 117 10806-10817 (2020)
PMID: 32371491

Function and Biology Details

Reaction catalysed: 
L-tyrosine = tyramine + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131367 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Tyrosine decarboxylase Chain: A
Molecule details ›
Chain: A
Length: 512 amino acids
Theoretical weight: 56.61 KDa
Source organism: Papaver somniferum
Expression system: Escherichia coli
UniProt:
  • Canonical: O82415 (Residues: 1-512; Coverage: 100%)
Gene names: C5167_008148, TYDC, TYDC9
Sequence domains: Pyridoxal-dependent decarboxylase conserved domain
Tyrosine decarboxylase Chain: B
Molecule details ›
Chain: B
Length: 512 amino acids
Theoretical weight: 56.84 KDa
Source organism: Papaver somniferum
Expression system: Escherichia coli
UniProt:
  • Canonical: O82415 (Residues: 1-512; Coverage: 100%)
Gene names: C5167_008148, TYDC, TYDC9
Sequence domains: Pyridoxal-dependent decarboxylase conserved domain

Ligands and Environments

3 bound ligands:
Ligand 0PR 1 x 0PR
Ligand SO4 7 x SO4
Ligand TYR 1 x TYR
1 modified residue:
Ligand LLP 1 x LLP

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P41212
Unit cell:
a: 122.771Å b: 122.771Å c: 166.998Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.19 0.187 0.235
Expression system: Escherichia coli

Quick links

Citations

5 review citations

General and specialized tyrosine metabolism pathways in plants.
Xu et al. (2020)
4 more

1 mention without citation

Structural basis for divergent and convergent evolution of catalytic machineries in plant aromatic amino acid decarboxylase proteins.
Torrens-Spence et al. (2020)