MolNFT v1 · #50249 · protein
Structure of the membrane-bound protein photosynthetic reaction center from rhodobacter sphaeroides
2RCR · Photosynthetic reaction center (L subunit): “Structure of the membrane-bound protein photosynthetic reaction center from rhodobacter sphaeroides”. X-ray diffraction, 4 ligands (BCL, BPH, UQ), 14 pockets (best druggability 0.80).…
- PDB
- 2RCR
- Type
- protein
- Length
- 838 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Photosynthetic reaction center (L subunit); Photosynthetic reaction center (M subunit)…
- UniProt
- P02954, P02953, P11846
- Ligands
- BCL, BPH, UQ, FE
- Pockets
- 14 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 40% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Photosynthetic reaction center (L subunit) | protein | 278 | 53% helix, 1% strand | P02954 |
| M | Photosynthetic reaction center (M subunit) | protein | 305 | 50% helix, 2% strand | P02953 |
| H | Photosynthetic reaction center (H subunit) | protein | 255 | 15% helix, 9% strand | P11846 |
Ligands and binding sites
- BCL · Bacteriochlorophyll A · ligand · 4 copies · chains L, M, H
- BPH · Bacteriopheophytin A · ligand · 2 copies · chains L, M
- UQ · Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer · ligand · 2 copies · chains L, M
- FE · Fe (III) ion · metal · chains L, M
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 713 | 0.80 | 0.83 | 66 | BCL |
| 2 | 163 | 0.68 | 0.87 | 22 | UQ |
| 3 | 192 | 0.63 | 0.83 | 25 | UQ |
| 4 | 88 | 0.55 | 0.85 | 18 | empty |
| 5 | 177 | 0.53 | 0.79 | 27 | empty |
Interfaces
3 interfaces between chains.
- L–M · 4523 Ų buried · 41 hydrogen bonds · protein-protein
- M–H · 2763 Ų buried · 19 hydrogen bonds · protein-protein
- L–H · 1847 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 2RCR · Structure of the membrane-bound protein photosynthetic reaction center from rhodobacter… · the same entry in another collection · chain L against L, 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 P02954
- Every structure of UniProt P02953
- Every structure of UniProt P11846
- Elsewhere: RCSB PDB 2RCR · PDBe 2RCR · UniProt P02954 · UniProt P02953 · UniProt P11846
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