CU(II)-bound structure of the engineered cyt CB562 variant, CH3

Structure

x-ray diffraction · 1 distinct chain · 78% helix, 0% strand (DSSP).

Ligands and binding sites

• HEC · Heme C · ligand · 2 copies · chains A, C
• CA · Calcium ion · metal · 5 copies · chains A, C
• CU · Copper (II) ion · metal · chains A, C

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

Pockets

3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Interfaces

1 interface between chains.

• A–C · 508 Ų buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 cofactor, 1 disulfide (heme c attachment, disulfide).

Compared structures

• 6DYD · Cu(II)-bound structure of the engineered cyt cb562 variant, CH3 · the same entry in another collection · chain A against A, TM-score 1.00
• P0ABE7 · AlphaFold monomer V2.0 prediction for soluble cytochrome B562 (P0ABE7) · a predicted model of the same protein · chain C against A, TM-score 0.97

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 P0ABE7
• Elsewhere: RCSB PDB 6DYD · PDBe 6DYD · UniProt P0ABE7