Research workbench
Crystal structure of bacteriorhodopsin mutant A215T, a phototaxis signaling mutant at 3.0 a resolution
Analyse Crystal structure of bacteriorhodopsin mutant A215T, a phototaxis signaling… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3T45
- Type
- protein
- Length
- 675 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacteriorhodopsin (ground state)
- UniProt
- P02945
- Ligands
- LI1, RET
- Pockets
- 7 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 76% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Bacteriorhodopsin (ground state) | protein | 225 | 76% helix, 4% strand | P02945 |
Ligands and binding sites
- LI1 · 1-[2,6,10.14-tetramethyl-hexadecan-16-yl]-2-[2,10,14-trimethylhexadecan-16-yl]glycerol · ligand · 11 copies · chains A, C, B
- RET · Retinal · ligand · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 128 | 0.81 | 0.98 | 26 | RET |
| 2 | 127 | 0.81 | 0.98 | 26 | RET |
| 3 | 121 | 0.79 | 0.97 | 25 | RET |
| 4 | 997 | 0.76 | 0.78 | 84 | LI1 |
| 5 | 414 | 0.71 | 0.82 | 43 | LI1 |
Interfaces
3 interfaces between chains.
- A–C · 752 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 752 Ų buried · 1 hydrogen bond · protein-protein
- A–B · 748 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 cofactor (retinal Schiff base).
Compared structures
- 3T45 · Crystal structure of bacteriorhodopsin mutant A215T, a phototaxis signaling mutant at 3.0… · 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 C 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 3T45 · PDBe 3T45 · UniProt P02945
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.