Reaction centre from rhodobacter sphaeroides strain R-26.1 complexed with dibrominated phosphatidylcholine

Structure

x-ray diffraction · 3 distinct chains · 52% helix, 10% strand (DSSP).

Ligands and binding sites

• BCL · Bacteriochlorophyll A · ligand · 4 copies · chains L, M
• BPH · Bacteriopheophytin A · ligand · 2 copies · chains L, M
• U10 · Ubiquinone-10 · ligand · 2 copies · chains L, M
• PC9 · (7R,14S)-14,15-dibromo-4-hydroxy-N,N,N-trimethyl-9-oxo-7-[(palmitoyloxy)methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide · ligand · chains L, M
• CDL · Cardiolipin · ligand · chains L, M, H
• HTO · Heptane-1,2,3-triol · ligand · chains H
• PC7 · (7S)-4-hydroxy-N,N,N-trimethyl-9-oxo-7-[(palmitoyloxy) methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide · ligand · chains L, M, H
• FE · Fe (III) ion · metal · chains L, M
• K · Potassium ion · metal · chains H
• PO4 · Phosphate ion · ion · 4 copies · chains L, H, M
• LDA · Lauryl dimethylamine-N-oxide · additive · 8 copies · chains L, M, H
• GOL · Glycerol · additive · 3 copies · chains L, H, M

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

Pockets

12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Interfaces

3 interfaces between chains.

• L–M · 4553 Ų buried · 67 hydrogen bonds · protein-protein
• M–H · 2843 Ų buried · 49 hydrogen bonds · protein-protein
• L–H · 1595 Ų buried · 16 hydrogen bonds · protein-protein

Compared structures

• 2HH1 · Reaction centre from Rhodobacter sphaeroides strain R-26.1 complexed with dibrominated… · the same entry in another collection · chain L against L, TM-score 1.00
• P0C0Y8 · AlphaFold monomer V2.0 prediction for reaction center protein L chain (P0C0Y8) · a predicted model of the same protein · chain L against A, TM-score 1.00
• P0C0Y9 · AlphaFold monomer V2.0 prediction for reaction center protein M chain (P0C0Y9) · a predicted model of the same protein · chain M against A, TM-score 1.00
• P0C0Y7 · AlphaFold monomer V2.0 prediction for reaction center protein H chain (P0C0Y7) · a predicted model of the same protein · chain H against A, TM-score 0.98

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 P0C0Y8
• Every structure of UniProt P0C0Y9
• Every structure of UniProt P0C0Y7
• Elsewhere: RCSB PDB 2HH1 · PDBe 2HH1 · UniProt P0C0Y8 · UniProt P0C0Y9 · UniProt P0C0Y7