Research workbench
Sfgfp mutant - 149 P-cyano-L-phenylalanine
Analyse Sfgfp mutant - 149 P-cyano-L-phenylalanine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DPH
- Type
- protein
- Length
- 456 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Green fluorescent protein
- UniProt
- A0A059PIQ0
- Ligands
- CRO, MG, CO2
- Pockets
- 4 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Green fluorescent protein | protein | 224 | 8% helix, 52% strand | A0A059PIQ0 |
| B | Green fluorescent protein | protein | 232 | 11% helix, 51% strand | A0A059PIQ0 |
Ligands and binding sites
- CRO · {2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 7 copies · chains A, B
- CO2 · Carbon dioxide · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 146 | 0.81 | 0.97 | 29 | CRO, CO2 |
| 2 | 127 | 0.79 | 0.97 | 25 | CRO, CO2 |
| 3 | 139 | 0.46 | 0.77 | 26 | MG |
| 4 | 85 | 0.31 | 0.72 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1212 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 cofactor, 2 modified (chromophore, nonstandard).
Compared structures
- 5DPH · sfGFP mutant - 149 p-cyano-L-phenylalanine · the same entry in another collection · 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 A0A059PIQ0
- Elsewhere: RCSB PDB 5DPH · PDBe 5DPH · UniProt A0A059PIQ0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.