› 5ydm

X-ray diffraction
2.5Å resolution

The crystal structure of the Acyl Transferase domain of SpnD complex with benzylmalonyl

Released:
DOI: 10.2210/pdb5ydm/pdb
PDB 5ydm coloured by chain and viewed from the front.
PDB 5ydm coloured by chain and viewed from the side.
PDB 5ydm coloured by chain and viewed from the top.
Source organism: Streptomyces sp. CNQ431
Entry authors: Li Y, Qu XD, Zhou JH

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Carrier domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 433 amino acids
Theoretical weight: 46.25 KDa
Source organism: Streptomyces sp. CNQ431
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: A0A0E3JLZ0 (Residues: 457-861; Coverage: 32%)
Gene name: spnD
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand DUW 1 x DUW
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P4322
Unit cell:
a: 108.927Å b: 108.927Å c: 144.838Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.199 0.221
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

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Citations

3 review citations

Repurposing Modular Polyketide Synthases and Non-ribosomal Peptide Synthetases for Novel Chemical Biosynthesis.
Hwang et al. (2020)
2 more