X-ray crystal structure of ruthenocene conjugated penicilloate and penilloate products in complex with ctx-M-14 E166A beta-lactamase

Structure

x-ray diffraction · 2 distinct chains · 44% helix, 19% strand (DSSP).

Ligands and binding sites

• JSC · [(1,2,3,4,5-eta)-1-(4-{[carboxy(4-carboxy-5,5-dimethyl-1,3-thiazolidin-2-yl)methyl]amino}-4-oxobutanoyl) cyclopentadienyl][(1,2,3,4,5-eta)-cyclopentadienyl]ruthenium · ligand · 2 copies · chains A, B
• JSD · [(1,2,3,4,5-eta)-1-(4-{[(4-carboxy-5,5-dimethyl-1,3-thiazolidin-2-yl)methyl]amino}-4-oxobutanoyl) cyclopentadienyl][(1,2,3,4,5-eta)-cyclopentadienyl]ruthenium · ligand · 2 copies · chains A, B
• GLC · alpha-D-glucopyranose · sugar · 3 copies · chains A, B
• FRU · beta-D-fructofuranose · sugar · 3 copies · chains A, B
• K · Potassium ion · metal · 2 copies · chains A, B
• RU · Ruthenium ion · metal
• PO4 · Phosphate ion · ion · 4 copies · chains A, B

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Interfaces

1 interface between chains.

• A–B · 118 Ų buried · 1 hydrogen bond · protein-protein

Compared structures

• 5TOY · X-Ray Crystal Structure of Ruthenocene Conjugated Penicilloate and Penilloate Products in… · the same entry in another collection · chain A against A, TM-score 1.00

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 A0A1B3B7F6
• Elsewhere: RCSB PDB 5TOY · PDBe 5TOY · UniProt A0A1B3B7F6