MolNFT v1 · #124145 · protein
Structure of a GH3 B-glucosidase from cow rumen metagenome
5K6L: “Structure of a GH3 B-glucosidase from cow rumen metagenome”. X-ray diffraction, 9 pockets (best druggability 0.64). MolNFT v1 #124145 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5K6L
- Type
- protein
- Length
- 794 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- B-glucosidase
- EC
- 3.2.1.21
- Pockets
- 9 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | B-glucosidase (EC 3.2.1.21) | protein | 794 | 30% helix, 23% strand | — |
Ligands and binding sites
- GOL · Glycerol · additive · 9 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 283 | 0.64 | 0.81 | 43 | GOL |
| 2 | 294 | 0.53 | 0.75 | 38 | empty |
| 3 | 123 | 0.51 | 0.81 | 18 | empty |
| 4 | 76 | 0.48 | 0.83 | 18 | GOL |
| 5 | 85 | 0.37 | 0.76 | 20 | empty |
Compared structures
- 5K6L · Structure of a GH3 b-glucosidase from cow rumen metagenome · 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
- Elsewhere: RCSB PDB 5K6L · PDBe 5K6L
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