MolNFT v1 · #159142 · protein
Crystal structure of split green fluorescent protein (GFP); S10 circular permutant (194-195)
6OFO: “Crystal structure of split green fluorescent protein (GFP); S10 circular permutant (194-195)”. X-ray diffraction, 1 ligand (GYS), 6 pockets (best druggability 0.80). MolNFT v1 #159142 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6OFO
- Type
- protein
- Length
- 441 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Green fluorescent protein (GFP)
- Ligands
- GYS
- Pockets
- 6 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 11% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Green fluorescent protein (GFP) | protein | 221 | 11% helix, 53% strand | — |
| B | Green fluorescent protein (GFP) | protein | 220 | 11% helix, 53% strand | — |
Ligands and binding sites
- GYS · [(4Z)-2-(1-amino-2-hydroxyethyl)-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 141 | 0.80 | 0.97 | 38 | GYS |
| 2 | 102 | 0.78 | 0.98 | 29 | GYS |
| 3 | 116 | 0.44 | 0.78 | 19 | empty |
| 4 | 56 | 0.43 | 0.83 | 15 | empty |
| 5 | 107 | 0.39 | 0.76 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 499 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 cofactor (chromophore).
Compared structures
- 6OFO · Crystal structure of split green fluorescent protein (GFP); s10 circular permutant… · 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
- Elsewhere: RCSB PDB 6OFO · PDBe 6OFO
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