› 6knh

X-ray diffraction
1.76Å resolution

Crystal structure of SbnH in complex with citrate, a PLP-dependent decarboxylase in Staphyloferrin B biothesynthesis

Released:
DOI: 10.2210/pdb6knh/pdb
PDB entry 6knh coloured by chain, front view.
PDB entry 6knh coloured by chain, side view.
PDB entry 6knh coloured by chain, top view.
Source organism: Staphylococcus aureus subsp. aureus Mu50
Primary publication:
Structural Insights into Substrate Recognition and Activity Regulation of the Key Decarboxylase SbnH in Staphyloferrin B Biosynthesis.
Tang J, Ju Y, Gu Q, Xu J, Zhou H
J Mol Biol 431 4868-4881 (2019)
PMID: 31634470

Function and Biology Details

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-101925 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Probable diaminopimelate decarboxylase protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 406 amino acids
Theoretical weight: 46.59 KDa
Source organism: Staphylococcus aureus subsp. aureus Mu50
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0H3JPF2 (Residues: 1-400; Coverage: 100%)
Gene name: SAV0123
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand CIT 3 x CIT
Ligand PO4 3 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: C2
Unit cell:
a: 175.291Å b: 79.585Å c: 111.656Å
α: 90° β: 102.48° γ: 90°
R-values:
R R work R free
0.17 0.169 0.188
Expression system: Escherichia coli

Quick links

Citations

1 citations in other articles

Alternative pathways utilize or circumvent putrescine for biosynthesis of putrescine-containing rhizoferrin.
Li et al. (2021)

2 mentions without citation

Iron Metabolism at the Interface between Host and Pathogen: From Nutritional Immunity to Antibacterial Development.
Marchetti et al. (2020)
1 more