MolNFT v1 · #137392 · protein
Structure of bacteriorhodopsin from crystals grown at 20 deg celcius using GLYNCOC15+4 as an lcp host lipid
5VN7: “Structure of bacteriorhodopsin from crystals grown at 20 deg celcius using GLYNCOC15+4 as an lcp host lipid”. X-ray diffraction, 3 pockets (best druggability 0.52). MolNFT v1 #137392 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5VN7
- Type
- protein
- Length
- 454 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacteriorhodopsin
- UniProt
- P02945
- Pockets
- 3 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 77% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bacteriorhodopsin | protein | 225 | 78% helix, 5% strand | P02945 |
| B | Bacteriorhodopsin | protein | 229 | 77% helix, 1% strand | P02945 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 293 | 0.52 | 0.74 | 34 | empty |
| 2 | 101 | 0.39 | 0.75 | 18 | empty |
| 3 | 53 | 0.31 | 0.76 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 726 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (nonstandard).
Compared structures
- 5VN7 · Structure of bacteriorhodopsin from crystals grown at 20 deg Celcius using GlyNCOC15+4 as… · the same entry in another collection · chain A against A, TM-score 1.00
- P02945 · AlphaFold monomer V2.0 prediction for bacteriorhodopsin (P02945) · a predicted model of the same protein · 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 P02945
- Elsewhere: RCSB PDB 5VN7 · PDBe 5VN7 · UniProt P02945
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