› 6ryp

X-ray diffraction
2.3Å resolution

Bacterial membrane enzyme structure by the in meso method at 2.3 A resolution

Released:
DOI: 10.2210/pdb6ryp/pdb
PDB entry 6ryp coloured by chain, front view.
PDB entry 6ryp coloured by chain, side view.
PDB entry 6ryp coloured by chain, top view.
Source organism: Staphylococcus aureus
Primary publication:
Structures of lipoprotein signal peptidase II from Staphylococcus aureus complexed with antibiotics globomycin and myxovirescin.
Olatunji S, Yu X, Bailey J, Huang CY, Zapotoczna M, Bowen K, Remškar M, Müller R, Scanlan EM, Geoghegan JA, Olieric V, Caffrey M
OpenAccess logo Nat Commun 11 140 (2020)
PMID: 31919415

Function and Biology Details

Reaction catalysed: 
Release of signal peptides from bacterial membrane prolipoproteins including murein prolipoprotein. Hydrolyzes -Xaa-Yaa-Zaa-|-(S,diacylglyceryl)Cys-, in which Xaa is hydrophobic (preferably Leu), and Yaa (Ala or Ser) and Zaa (Gly or Ala) have small, neutral sidechains.
Biochemical function:
Biological process:
Cellular component:
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-179670 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Lipoprotein signal peptidase Chain: A
Molecule details ›
Chain: A
Length: 187 amino acids
Theoretical weight: 21.23 KDa
Source organism: Staphylococcus aureus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6GHN9 (Residues: 1-163; Coverage: 100%)
Gene names: SAR1172, lsp, lspA
Sequence domains: Signal peptidase (SPase) II

Ligands and Environments

5 bound ligands:
Ligand KNH 1 x KNH
Ligand ZN 2 x ZN
Ligand OLC 8 x OLC
Ligand PEG 3 x PEG
Ligand SO4 4 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P6122
Unit cell:
a: 54.17Å b: 54.17Å c: 317.54Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.256 0.254 0.281
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Bacterial Signal Peptides- Navigating the Journey of Proteins.
Kaushik et al. (2022)
2 more

1 mention without citation

Structures of lipoprotein signal peptidase II from Staphylococcus aureus complexed with antibiotics globomycin and myxovirescin.
Olatunji et al. (2020)