MolNFT v1 · #106786 · protein
Structure of a ubia homolog from archaeoglobus fulgidus bound to gpp and MG2+
4TQ3 · Prenyltransferase: “Structure of a ubia homolog from archaeoglobus fulgidus bound to gpp and MG2+”. X-ray diffraction, 2 ligands (GPP, MG), 10 pockets (best druggability 0.88). MolNFT v1 #106786 on GenesisL1: 3D structure, binding…
- PDB
- 4TQ3
- Type
- protein
- Length
- 1,135 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Prenyltransferase
- UniProt
- O28625
- Ligands
- GPP, MG
- Pockets
- 10 · best druggability 0.88
Structure
x-ray diffraction · 2 distinct chains · 76% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Prenyltransferase | protein | 283 | 77% helix, 1% strand | O28625 |
| B, C, D | Prenyltransferase | protein | 284 | 76% helix, 1% strand | O28625 |
Ligands and binding sites
- GPP · Geranyl diphosphate · ligand · 4 copies · chains A, B, C, D
- MG · Magnesium ion · metal · 8 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1095 | 0.88 | 0.89 | 97 | GPP, MG |
| 2 | 749 | 0.85 | 0.88 | 70 | GPP, MG |
| 3 | 888 | 0.85 | 0.86 | 70 | GPP, MG |
| 4 | 1092 | 0.83 | 0.83 | 92 | GPP, MG |
| 5 | 814 | 0.80 | 0.82 | 57 | empty |
Interfaces
3 interfaces between chains.
- A–D · 668 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 633 Ų buried · 0 hydrogen bonds · protein-protein
- B–D · 337 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4TQ3 · Structure of a UbiA homolog from Archaeoglobus fulgidus bound to GPP and Mg2+ · 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 O28625
- Elsewhere: RCSB PDB 4TQ3 · PDBe 4TQ3 · UniProt O28625
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.