6IKM image
Deposition Date 2018-10-16
Release Date 2019-12-25
Last Version Date 2024-11-13
Entry Detail
PDB ID:
6IKM
Title:
Crystal structure of SpuE-Spermidine in complex with ScFv5
Biological Source:
Method Details:
Experimental Method:
Resolution:
3.40 Å
R-Value Free:
0.26
R-Value Work:
0.22
R-Value Observed:
0.23
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Polyamine transport protein
Chain IDs:A, C (auth: B), E (auth: C), G (auth: D), I (auth: E), K (auth: F), M (auth: G), O (auth: H), Q (auth: I), S (auth: J), U (auth: K), W (auth: L), Y (auth: M), AA (auth: N), CA (auth: O), EA (auth: P), GA (auth: Q), IA (auth: R)
Chain Length:258
Number of Molecules:18
Biological Source:Pseudomonas aeruginosa
Polymer Type:polypeptide(L)
Molecule:ScFv5
Chain IDs:B (auth: a), D (auth: b), F (auth: c), H (auth: d), J (auth: e), L (auth: f), N (auth: g), P (auth: h), R (auth: i), T (auth: j), V (auth: k), X (auth: l), Z (auth: m), BA (auth: n), DA (auth: o), FA (auth: p), HA (auth: q), JA (auth: r)
Chain Length:258
Number of Molecules:18
Biological Source:Homo sapiens
Primary Citation
A Potent Anti-SpuE Antibody Allosterically Inhibits Type III Secretion System and Attenuates Virulence of Pseudomonas Aeruginosa.
J.Mol.Biol. 431 4882 4896 (2019)
PMID: 31682834 DOI: 10.1016/j.jmb.2019.10.026

Abstact

Multidrug-resistant gram-negative bacteria infection is particularly severe within the designated ESKAPE pathogens (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, and Enterobacter species), which underscores the urgent need to explore alternative therapeutic strategies. The type III secretion system (T3SS) is considered to be a key virulence factor in many gram-negative bacteria, and T3SS is in turn regulated by SpuE in P. aeruginosa, which is a spermidine binding protein from an ATP-binding cassette transporter family and highly conserved within ESKAPE pathogens. Here, we identified a potent anti-SpuE antagonistic antibody that allosterically inhibits the expression of T3SS and attenuates virulence of P. aeruginosa. X-ray crystallography and molecular dynamics simulations revealed that binding of antibody to SpuE induces a change in the dynamics of SpuE, which in turn may reduce spermidine uptake by P. aeruginosa. The antibody could serve as a template for developing novel biologics to target a broad spectrum of gram-negative bacteria.

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Chemical

Disease

Primary Citation of related structures
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