› 6t46

X-ray diffraction
2.45Å resolution

Structure of the Rap conjugation gene regulator of the plasmid pLS20 in complex with the Phr* peptide

Released:
DOI: 10.2210/pdb6t46/pdb
PDB entry 6t46 coloured by chain, front view.
PDB entry 6t46 coloured by chain, side view.
PDB entry 6t46 coloured by chain, top view.
Source organism: Bacillus subtilis subsp. natto
Primary publication:
Inactivation of the dimeric RappLS20 anti-repressor of the conjugation operon is mediated by peptide-induced tetramerization.
Crespo I, Bernardo N, Miguel-Arribas A, Singh PK, Luque-Ortega JR, Alfonso C, Malfois M, Meijer WJJ, Boer DR
OpenAccess logo Nucleic Acids Res 48 8113-8127 (2020)
PMID: 32658272

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123232 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Response regulator aspartate phosphatase Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 376 amino acids
Theoretical weight: 44.5 KDa
Source organism: Bacillus subtilis subsp. natto
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: E9RIY6 (Residues: 1-368; Coverage: 100%)
Gene name: rapA
Sequence domains:
Phr family secreted Rap phosphatase inhibitor Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 44 amino acids
Theoretical weight: 4.64 KDa
Source organism: Bacillus subtilis subsp. natto
Expression system: Not provided
UniProt:
  • Canonical: E9RIY7 (Residues: 1-44; Coverage: 100%)

Ligands and Environments

2 bound ligands:
Ligand CL 3 x CL
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALBA BEAMLINE XALOC
Spacegroup: C2
Unit cell:
a: 116.67Å b: 93.282Å c: 167.687Å
α: 90° β: 94.97° γ: 90°
R-values:
R R work R free
0.205 0.202 0.262
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

1 review citation

Multiple Layered Control of the Conjugation Process of the Bacillus subtilis Plasmid pLS20.
Meijer et al. (2021)
4 other articles

1 mention without citation

Inactivation of the dimeric RappLS20 anti-repressor of the conjugation operon is mediated by peptide-induced tetramerization.
Crespo et al. (2020)