Research workbench
Crystal structure of (E)-biformene synthase lrdc from streptomyces sp. strain K155 in complex with mg and ppi
Analyse Crystal structure of (E)-biformene synthase lrdc from streptomyces sp. strain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OH6
- Type
- protein
- Length
- 311 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Labdane-related diterpene synthase
- EC
- 4.2.3.193
- UniProt
- A0A158RFK9
- Ligands
- PPV, MG
- Pockets
- 4 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Labdane-related diterpene synthase (EC 4.2.3.193) | protein | 311 | 72% helix, 0% strand | A0A158RFK9 |
Ligands and binding sites
- PPV · Pyrophosphate · ligand · chains A
- MG · Magnesium ion · metal · 3 copies · chains A
- PEG · Di(hydroxyethyl)ether · additive · 3 copies · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 305 | 0.80 | 0.91 | 44 | PPV, MG |
| 2 | 127 | 0.45 | 0.77 | 24 | empty |
| 3 | 62 | 0.39 | 0.80 | 17 | empty |
| 4 | 54 | 0.27 | 0.74 | 10 | empty |
Compared structures
- 6OH6 · Crystal structure of (E)-biformene synthase LrdC from Streptomyces sp. strain K155 in… · 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 A0A158RFK9
- Elsewhere: RCSB PDB 6OH6 · PDBe 6OH6 · UniProt A0A158RFK9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.