MolNFT v1 · #27125 · protein
Crystal structure of yellow fluorescent protein ZFP538 K66M green mutant
1XA9 · Fluorescent protein FP538: “Crystal structure of yellow fluorescent protein ZFP538 K66M green mutant”. X-ray diffraction, 1 ligand (CH6), 1 pocket (best druggability 0.73). MolNFT v1 #27125 on GenesisL1: 3D structure, binding sites…
- PDB
- 1XA9
- Type
- protein
- Length
- 224 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fluorescent protein FP538
- UniProt
- Q9U6Y4
- Ligands
- CH6
- Pockets
- 1 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 4% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fluorescent protein FP538 | protein | 224 | 4% helix, 56% strand | Q9U6Y4 |
Ligands and binding sites
- CH6 · {(4Z)-2-[(1S)-1-amino-3-(methylsulfanyl)propyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid · ligand · chains A
- BME · Beta-mercaptoethanol · 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 | 81 | 0.73 | 0.97 | 28 | CH6 |
Modifications
Observed in the structure: 2 cofactor, 1 covalent (chromophore, additive adduct).
Compared structures
- 1XA9 · Crystal structure of yellow fluorescent protein zFP538 K66M green mutant · the same entry in another collection · chain A against A, TM-score 1.00
- Q9U6Y4 · AlphaFold monomer V2.0 prediction for GFP-like fluorescent chromoprotein FP538 (Q9U6Y4) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9U6Y4
- Elsewhere: RCSB PDB 1XA9 · PDBe 1XA9 · UniProt Q9U6Y4
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