› 1xkp

X-ray diffraction
1.7Å resolution

Crystal structure of the virulence factor YopN in complex with its heterodimeric chaperone SycN-YscB

Released:
DOI: 10.2210/pdb1xkp/pdb
PDB entry 1xkp coloured by chain, front view.
PDB entry 1xkp coloured by chain, side view.
PDB entry 1xkp coloured by chain, top view.
Source organism: Yersinia pestis
Primary publication:
Three-dimensional structure of a macromolecular assembly that regulates type III secretion in Yersinia pestis.
Schubot FD, Jackson MW, Penrose KJ, Cherry S, Tropea JE, Plano GV, Waugh DS
J Mol Biol 346 1147-61 (2005)
PMID: 15701523

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-158259 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Outer membrane protein YopN Chain: A
Molecule details ›
Chain: A
Length: 246 amino acids
Theoretical weight: 27.74 KDa
Source organism: Yersinia pestis
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P68640 (Residues: 33-277; Coverage: 84%)
Gene names: YPCD1.39c, YP_pCD44, lcrE, y0042, y5039, yopN
Sequence domains: HrpJ-like domain
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Chaperone protein SycN Chain: B
Molecule details ›
Chain: B
Length: 124 amino acids
Theoretical weight: 13.77 KDa
Source organism: Yersinia pestis
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P61380 (Residues: 1-122; Coverage: 99%)
Gene names: YPCD1.37c, YP_pCD46, sycN, y0044, y5041
Sequence domains: Type III secretory system chaperone SycN
Structure domains: Yope Regulator; Chain: A,
Chaperone protein YscB Chain: C
Molecule details ›
Chain: C
Length: 143 amino acids
Theoretical weight: 16.39 KDa
Source organism: Yersinia pestis
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q56973 (Residues: 1-137; Coverage: 100%)
Gene names: YPCD1.51, YP_pCD32, y0030, y5027, yscB
Sequence domains: Tir chaperone protein (CesT) family
Structure domains: Yope Regulator; Chain: A,

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MLY 22 x MLY

Experiments and Validation Details

Entry percentile scores
Spacegroup: P41
Unit cell:
a: 60.718Å b: 60.718Å c: 140.419Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.198 0.242
Expression system: Escherichia coli BL21

Quick links

Citations

19 review citations

Protein delivery into eukaryotic cells by type III secretion machines.
Galán et al. (2006)
18 more

13 mentions without citation

The Structure and Function of Type III Secretion Systems.
Notti et al. (2016)
12 more