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X-ray diffraction
1.99Å resolution

Crystal structure of a putative plp-dependent beta-cystathionase (aecd, dip1736) from corynebacterium diphtheriae at 1.99 A resolution

Released:
DOI: 10.2210/pdb3fdb/pdb
PDB entry 3fdb coloured by chain, front view.
PDB entry 3fdb coloured by chain, side view.
PDB entry 3fdb coloured by chain, top view.
Source organism: Corynebacterium diphtheriae
Entry author: Joint Center for Structural Genomics (JCSG)

Function and Biology Details

Reaction catalysed: 
(1a) an L-cysteine-S-conjugate = a thiol + 2-aminoporp-2-enoate
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-180039 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
cysteine-S-conjugate beta-lyase Chain: A
Molecule details ›
Chain: A
Length: 377 amino acids
Theoretical weight: 42.38 KDa
Source organism: Corynebacterium diphtheriae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6NFZ9 (Residues: 1-376; Coverage: 100%)
Gene names: DIP1736, aecD
Sequence domains: Aminotransferase class I and II
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand NA 1 x NA
Ligand CL 5 x CL
Ligand EDO 9 x EDO
2 modified residues:
Ligand MSE 7 x MSE
Ligand LLP 1 x LLP

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: P3121
Unit cell:
a: 69.18Å b: 69.18Å c: 215.46Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.149 0.147 0.175
Expression system: Escherichia coli

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