MolNFT v1 · #40004 · protein
Red fluorescent protein ZRFP574 from zoanthus sp.
2ICR · Red fluorescent protein zoanrfp: “Red fluorescent protein ZRFP574 from zoanthus sp.”. X-ray diffraction, 2 ligands (XYG, SO4), 14 pockets (best druggability 0.74). MolNFT v1 #40004 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2ICR
- Type
- protein
- Length
- 901 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Red fluorescent protein zoanrfp
- UniProt
- Q8T4U4
- Ligands
- XYG, SO4
- Pockets
- 14 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 55% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D | Red fluorescent protein zoanrfp | protein | 225 | 6% helix, 55% strand | Q8T4U4 |
| C | Red fluorescent protein zoanrfp | protein | 226 | 8% helix, 55% strand | Q8T4U4 |
Ligands and binding sites
- XYG · [(4Z)-2-[(1Z)-ethanimidoyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid · ligand · 4 copies · chains A, B, C, D
- SO4 · Sulfate ion · ion · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 64 | 0.74 | 0.99 | 22 | XYG |
| 2 | 70 | 0.73 | 0.97 | 25 | XYG |
| 3 | 71 | 0.72 | 0.97 | 26 | XYG |
| 4 | 63 | 0.72 | 0.98 | 24 | XYG |
| 5 | 417 | 0.65 | 0.79 | 53 | empty |
Interfaces
4 interfaces between chains.
- B–C · 906 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 809 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 516 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 309 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 covalent (covalent ligand).
Compared structures
- 2ICR · Red fluorescent protein zRFP574 from Zoanthus sp. · the same entry in another collection · chain D against D, 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 Q8T4U4
- Elsewhere: RCSB PDB 2ICR · PDBe 2ICR · UniProt Q8T4U4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.