MolNFT v1 · #142043 · protein
Tyrosinase from burkholderia thailandensis (bttyr) at low pH condition
5ZRD: “Tyrosinase from burkholderia thailandensis (bttyr) at low pH condition”. X-ray diffraction, 2 ligands (CU, O), 20 pockets (best druggability 0.89). MolNFT v1 #142043 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5ZRD
- Type
- protein
- Length
- 2,122 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tyrosinase
- EC
- 1.14.18.1
- UniProt
- Q2T7K1
- Ligands
- CU, O
- Pockets
- 20 · best druggability 0.89
Structure
x-ray diffraction · 4 distinct chains · 35% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tyrosinase (EC 1.14.18.1) | protein | 534 | 33% helix, 15% strand | Q2T7K1 |
| B | Tyrosinase (EC 1.14.18.1) | protein | 531 | 33% helix, 15% strand | Q2T7K1 |
| C | Tyrosinase (EC 1.14.18.1) | protein | 529 | 37% helix, 14% strand | Q2T7K1 |
| D | Tyrosinase (EC 1.14.18.1) | protein | 528 | 35% helix, 17% strand | Q2T7K1 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 8 copies · chains A, B, C, D
- O · Oxygen atom · ion · 4 copies · chains A, B, C, D
- GOL · Glycerol · additive · 14 copies · chains A, B, C, D
- CIT · Citric acid · additive · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 818 | 0.89 | 0.93 | 133 | CIT |
| 2 | 512 | 0.86 | 0.92 | 90 | empty |
| 3 | 275 | 0.82 | 0.93 | 49 | GOL |
| 4 | 354 | 0.82 | 0.91 | 61 | GOL |
| 5 | 134 | 0.76 | 0.95 | 26 | CIT |
Interfaces
4 interfaces between chains.
- A–B · 1269 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 1236 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 919 Ų buried · 12 hydrogen bonds · protein-protein
- A–D · 918 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5ZRD · Tyrosinase from Burkholderia thailandensis (BtTYR) at low pH condition · 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
- Every structure of UniProt Q2T7K1
- Elsewhere: RCSB PDB 5ZRD · PDBe 5ZRD · UniProt Q2T7K1
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.