Research workbench
Structure of S65A Y66S GFP variant after backbone fragmentation
Analyse Structure of S65A Y66S GFP variant after backbone fragmentation in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2G16
- Type
- protein
- Length
- 225 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Green fluorescent protein
- UniProt
- P42212
- Ligands
- E1H, CWR
- Pockets
- 1 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Green fluorescent protein | protein | 62 | 15% helix, 52% strand | P42212 |
| B | Green fluorescent protein | protein | 163 | 8% helix, 53% strand | P42212 |
Ligands and binding sites
- E1H · Ethanimine · ligand · chains A, B
- CWR · (4-methyl-5-oxo-2,5-dihydro-1H-imidazol-1-yl)acetic acid · ligand · chains A, B
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 | 65 | 0.73 | 0.98 | 20 | E1H, CWR |
Interfaces
1 interface between chains.
- A–B · 2267 Ų buried · 33 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 covalent (covalent ligand).
Compared structures
- 2G16 · Structure of S65A Y66S GFP variant after backbone fragmentation · the same entry in another collection · chain A against A, TM-score 1.00
- P42212 · AlphaFold monomer V2.0 prediction for green fluorescent protein (P42212) · a predicted model of the same protein · chain B 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 P42212
- Elsewhere: RCSB PDB 2G16 · PDBe 2G16 · UniProt P42212
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