MolNFT v1 · #143716 · protein
Truncated strand 11-less green fluorescent protein
6B7R: “Truncated strand 11-less green fluorescent protein”. X-ray diffraction, 1 ligand (GYS), 5 pockets (best druggability 0.77). MolNFT v1 #143716 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6B7R
- Type
- protein
- Length
- 454 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Green fluorescent protein
- UniProt
- P42212
- Ligands
- GYS
- Pockets
- 5 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A | Green fluorescent protein | protein | 227 | 11% helix, 51% strand | P42212 |
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 B, A
- NHE · 2-[N-cyclohexylamino]ethane sulfonic acid · additive · 4 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 87 | 0.77 | 0.98 | 25 | GYS |
| 2 | 84 | 0.76 | 0.98 | 24 | GYS |
| 3 | 105 | 0.53 | 0.83 | 21 | empty |
| 4 | 102 | 0.45 | 0.79 | 25 | empty |
| 5 | 62 | 0.42 | 0.81 | 21 | empty |
Interfaces
1 interface between chains.
- B–A · 595 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 cofactor (chromophore).
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 6B7R · PDBe 6B7R · UniProt P42212
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