Photosynthetic reaction center from rhodobacter sphaeroides strain rv lsp co-crystallization with spheroidene

Structure

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

Ligands and binding sites

• UNL · Unknown ligand · ligand · 5 copies · chains L, M, H
• BCL · Bacteriochlorophyll A · ligand · 4 copies · chains L, M
• BPH · Bacteriopheophytin A · ligand · 2 copies · chains L, M
• NKP · (2R)-2-hydroxy-3-(phosphonooxy)propyl (9E)-octadec-9-enoate · ligand · 2 copies · chains M, H, L
• U10 · Ubiquinone-10 · ligand · chains L, M
• SPN · Speroidenone · ligand · chains M
• FE · Fe (III) ion · metal · chains L, M
• PO4 · Phosphate ion · ion · chains H, M
• LDA · Lauryl dimethylamine-N-oxide · additive · 4 copies · chains H, M, L
• OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · chains L, 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, 6 with a druggability of 0.5 or more.

Interfaces

3 interfaces between chains.

• L–M · 4599 Ų buried · 71 hydrogen bonds · protein-protein
• H–M · 2904 Ų buried · 46 hydrogen bonds · protein-protein
• H–L · 1613 Ų buried · 17 hydrogen bonds · protein-protein

Compared structures

• 6Z1J · Photosynthetic Reaction Center From Rhodobacter Sphaeroides strain RV LSP… · the same entry in another collection · chain H against H, 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
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• Elsewhere: RCSB PDB 6Z1J · PDBe 6Z1J · UniProt P0C0Y7 · UniProt P0C0Y8 · UniProt P0C0Y9