MolNFT v1 · #124146 · protein
Structure of a GH3 B-glicosidase from cow rumen metagenome in complex with glucose
5K6M · B-glucosidase: “Structure of a GH3 B-glicosidase from cow rumen metagenome in complex with glucose”. X-ray diffraction, 2 ligands (BGC, SO4), 7 pockets (best druggability 0.62). MolNFT v1 #124146 on GenesisL1: 3D structure, binding…
- PDB
- 5K6M
- Type
- protein
- Length
- 791 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- B-glucosidase
- EC
- 3.2.1.21
- Ligands
- BGC, SO4
- Pockets
- 7 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | B-glucosidase (EC 3.2.1.21) | protein | 791 | 30% helix, 24% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 258 | 0.62 | 0.81 | 44 | empty |
| 2 | 137 | 0.54 | 0.81 | 17 | empty |
| 3 | 220 | 0.47 | 0.74 | 29 | empty |
| 4 | 63 | 0.42 | 0.81 | 18 | BGC |
| 5 | 122 | 0.37 | 0.73 | 19 | empty |
Compared structures
- 5K6M · Structure of a GH3 b-glIcosidase from cow rumen metagenome in complex with glucose · 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 5K6M · PDBe 5K6M
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