MolNFT v1 · #191425 · protein
Superfolder GFP TYR74PCNPHE mutant
8DPD · Superfolder green fluorescent protein: “Superfolder GFP TYR74PCNPHE mutant”. X-ray diffraction, 3 ligands (CRO, MG, CO2), 1 pocket (best druggability 0.76). MolNFT v1 #191425 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 8DPD
- Type
- protein
- Length
- 227 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Superfolder green fluorescent protein
- UniProt
- P42212
- Ligands
- CRO, MG, CO2
- Pockets
- 1 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 10% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Superfolder green fluorescent protein | protein | 227 | 10% helix, 52% strand | P42212 |
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 · chains A
- MG · Magnesium ion · metal · 4 copies · chains A
- CO2 · Carbon dioxide · ion · chains A
- EDO · 1,2-ethanediol · additive · 4 copies · chains A
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 101 | 0.76 | 0.96 | 20 | CRO, CO2 |
Modifications
Observed in the structure: 2 cofactor, 1 modified (chromophore, nonstandard).
Compared structures
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 P42212
- Elsewhere: RCSB PDB 8DPD · PDBe 8DPD · UniProt P42212
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