› 3zbi

Electron Microscopy
8.5Å resolution

Fitting result in the O-layer of the subnanometer structure of the bacterial pKM101 type IV secretion system core complex digested with elastase

Released:
DOI: 10.2210/pdb3zbi/pdb
PDB entry 3zbi coloured by chain, front view.
PDB entry 3zbi coloured by chain, side view.
PDB entry 3zbi coloured by chain, top view.
Source organism: Escherichia coli BL21
Primary publication:
Structure of a bacterial type IV secretion core complex at subnanometre resolution.
Rivera-Calzada A, Fronzes R, Savva CG, Chandran V, Lian PW, Laeremans T, Pardon E, Steyaert J, Remaut H, Waksman G, Orlova EV
EMBO J 32 1195-204 (2013)
PMID: 23511972
Related structures: EMD-2233

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 42-mer (preferred)
PDBe Complex ID:
PDB-CPX-175133 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
TraF protein Chains: A, D, G, J, M, P, S, V, Y, b, e, h, k, n
Molecule details ›
Chains: A, D, G, J, M, P, S, V, Y, b, e, h, k, n
Length: 216 amino acids
Theoretical weight: 22.96 KDa
Source organism: Escherichia coli BL21
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q46705 (Residues: 171-386; Coverage: 56%)
Gene name: traF
Sequence domains: Bacterial conjugation TrbI-like protein
TraO protein Chains: B, E, H, K, N, Q, T, W, Z, c, f, i, l, o
Molecule details ›
Chains: B, E, H, K, N, Q, T, W, Z, c, f, i, l, o
Length: 130 amino acids
Theoretical weight: 14.68 KDa
Source organism: Escherichia coli BL21
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q46704 (Residues: 161-290; Coverage: 48%)
Gene name: traO
Sequence domains: Conjugal transfer protein
TraN protein Chains: C, F, I, L, O, R, U, X, a, d, g, j, m, p
Molecule details ›
Chains: C, F, I, L, O, R, U, X, a, d, g, j, m, p
Length: 48 amino acids
Theoretical weight: 5.14 KDa
Source organism: Escherichia coli BL21
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q46702 (Residues: 1-48; Coverage: 100%)
Gene name: traN
Sequence domains: P-type Type IV secretion system, TraN

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 8.5Å
Relevant EMDB volumes: EMD-2233
Expression system: Escherichia coli BL21

Quick links

Citations

27 review citations

Secretion systems in Gram-negative bacteria: structural and mechanistic insights.
Costa et al. (2015)
26 more

1 mention without citation

OpenProteinSet: Training data for structural biology at scale.
Ahdritz et al. (2023)