› 2zjs

X-ray diffraction
3.2Å resolution

Crystal Structure of SecYE translocon from Thermus thermophilus with a Fab fragment

Released:
DOI: 10.2210/pdb2zjs/pdb
PDB entry 2zjs coloured by chain, front view.
PDB entry 2zjs coloured by chain, side view.
PDB entry 2zjs coloured by chain, top view.
Source organisms:
Primary publication:
Conformational transition of Sec machinery inferred from bacterial SecYE structures.
Tsukazaki T, Mori H, Fukai S, Ishitani R, Mori T, Dohmae N, Perederina A, Sugita Y, Vassylyev DG, Ito K, Nureki O
Nature 455 988-91 (2008)
PMID: 18923527

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero dimer
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-211189 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Protein translocase subunit SecY Chain: Y
Molecule details ›
Chain: Y
Length: 434 amino acids
Theoretical weight: 47.64 KDa
Source organism: Thermus thermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5SHQ8 (Residues: 1-434; Coverage: 99%)
Gene names: TTHA1672, secY
Sequence domains: SecY
Structure domains: SecY subunit domain
Protein translocase subunit SecE Chain: E
Molecule details ›
Chain: E
Length: 60 amino acids
Theoretical weight: 7.07 KDa
Source organism: Thermus thermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: P38383 (Residues: 1-60; Coverage: 100%)
Gene names: TTHA0249, secE
Sequence domains: SecE/Sec61-gamma subunits of protein translocation complex
Structure domains: Preprotein translocase secy subunit
Fab56 (heavy chain) Chain: H
Molecule details ›
Chain: H
Length: 221 amino acids
Theoretical weight: 23.78 KDa
Source organism: Mus musculus
Expression system: Not provided
Structure domains: Immunoglobulins
Fab56 (light chain) Chain: L
Molecule details ›
Chain: L
Length: 214 amino acids
Theoretical weight: 23.74 KDa
Source organism: Mus musculus
Expression system: Not provided
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU, PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: C2
Unit cell:
a: 189.096Å b: 103.073Å c: 78.005Å
α: 90° β: 105.18° γ: 90°
R-values:
R R work R free
0.246 0.244 0.28
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

46 review citations

Mechanisms of Sec61/SecY-mediated protein translocation across membranes.
Park et al. (2012)
45 more

20 mentions without citation

The bacterial Sec-translocase: structure and mechanism.
Lycklama A Nijeholt et al. (2012)
19 more