Research workbench
Crystal structure of bacteriorhodopsin mutant L94A crystallized from bicelles
Analyse Crystal structure of bacteriorhodopsin mutant L94A crystallized from bicelles in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3HAO
- Type
- protein
- Length
- 452 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacteriorhodopsin
- UniProt
- P02945
- Ligands
- RET
- Pockets
- 7 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 76% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Bacteriorhodopsin | protein | 226 | 76% helix, 5% strand | P02945 |
Ligands and binding sites
- RET · Retinal · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 133 | 0.81 | 0.98 | 23 | RET |
| 2 | 134 | 0.81 | 0.97 | 24 | RET |
| 3 | 105 | 0.61 | 0.86 | 21 | empty |
| 4 | 91 | 0.56 | 0.85 | 16 | empty |
| 5 | 96 | 0.56 | 0.84 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 817 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 cofactor (retinal Schiff base).
Compared structures
- 3HAO · Crystal structure of bacteriorhodopsin mutant L94A crystallized from bicelles · 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 0.99
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 3HAO · PDBe 3HAO · UniProt P02945
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.