Covalent: Protein Structures for Siderophore Transporter Photo-Crosslinking

Covalent photo-cross-linker probes DFO-azir-05 and DFO-azir-06 were designed to directly tag ferrioxamine-binding transmembrane transporters in bacteria. The dataset, published by Minhua Cao on figshare in 2026, contains PDB files of co-crystal structures, including Fe-D1 bound to Pseudomonas aeruginosa's FoxA transporter. This approach identified transporters like FoxA, FpvB, FhuA, and FhuE, and suggested a new role for BtuB.

Use Cases

• Analyzing protein-ligand binding sites based on co-crystal structures of siderophore-metal complexes.
• Designing covalent probes for transmembrane transporters based on structural characteristics of ferrioxamine derivatives.
• Identifying promiscuous siderophore transport systems in bacteria using direct tagging strategies.
• Studying the role of outer-membrane transporters like FoxA in the uptake of xenosiderophores.

Strengths

• Includes specific, rationally designed probe structures (DFO-azir-05, DFO-azir-06) validated in experiments.
• Directly tags and identifies multiple known transporters (FoxA, FpvB, FhuA, FhuE) and suggests a novel function for BtuB.
• Data is shared under a CC-BY-NC-4.0 license, allowing for non-commercial reuse with attribution.

Limitations

• Dataset size is only 925.2 KB, indicating a very limited scope focused on specific protein structures.
• Row count and column-level documentation are absent; data semantics must be inferred from the PDB files.
• Description metadata is limited; actual data quality and completeness require manual inspection after download.

Provenance

Source

figshare

Collection Method

Rational design of covalent photo-cross-linker probes based on co-crystal structure analysis.

Freshness

Last updated 2026-05-13 18:36:04.