› 4mpd

X-ray diffraction
2.1Å resolution

Staphyloferrin B precursor biosynthetic enzyme SbnB bound a-ketoglutarate and NAD+

Released:
DOI: 10.2210/pdb4mpd/pdb
Model geometry
Fit model/data
PDB entry 4mpd coloured by chain, front view.
PDB entry 4mpd coloured by chain, side view.
PDB entry 4mpd coloured by chain, top view.
Source organism: Staphylococcus aureus subsp. aureus MW2
Primary publication:
Synthesis of L-2,3-diaminopropionic acid, a siderophore and antibiotic precursor.
Kobylarz MJ, Grigg JC, Takayama SJ, Rai DK, Heinrichs DE, Murphy ME
Chem Biol 21 379-88 (2014)
PMID: 24485762

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-102045 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ornithine cyclodeaminase Chain: A
Molecule details ›
Chain: A
Length: 339 amino acids
Theoretical weight: 38.07 KDa
Source organism: Staphylococcus aureus subsp. aureus MW2
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A0H3K9Y6 (Residues: 1-336; Coverage: 100%)
Gene names: NWMN_0061, sbnB
Sequence domains: Ornithine cyclodeaminase/mu-crystallin family
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand NAJ 1 x NAJ
Ligand AKG 1 x AKG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P41212
Unit cell:
a: 61.931Å b: 61.931Å c: 151.718Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.233 0.229 0.266
Expression system: Escherichia coli BL21(DE3)

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Citations

4 review citations

Recent developments in understanding the iron acquisition strategies of gram positive pathogens.
Sheldon et al. (2015)
3 more

3 mentions without citation

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