Mechanistic basis of plasmid-specific DNA binding of the F plasmid regulatory protein, tram

Structure

x-ray diffraction · 3 distinct chains · 69% helix, 10% strand (DSSP).

Ligands and binding sites

• PO4 · Phosphate ion · ion · 4 copies · chains B, C, A, D

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Interfaces

6 interfaces between chains.

• A–C · 1631 Ų buried · 18 hydrogen bonds · protein-protein
• B–D · 1464 Ų buried · 16 hydrogen bonds · protein-protein
• B–C · 264 Ų buried · 1 hydrogen bond · protein-protein
• A–D · 227 Ų buried · 4 hydrogen bonds · protein-protein
• C–D · 99 Ų buried · 0 hydrogen bonds · protein-protein

Compared structures

• 4QPO · Mechanistic basis of plasmid-specific DNA binding of the F plasmid regulatory protein… · the same entry in another collection · chain A against A, TM-score 1.00
• P10026 · AlphaFold monomer V2.0 prediction for relaxosome protein tram (P10026) · a predicted model of the same protein · chain D against A, TM-score 0.93

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt P10026
• Elsewhere: RCSB PDB 4QPO · PDBe 4QPO · UniProt P10026