Research workbench
The truncated fibrobacter succinogenes 1,3-1,4-beta-D-glucanase V18Y/W203Y in apo-form
Analyse The truncated fibrobacter succinogenes 1,3-1,4-beta-D-glucanase V18Y/W203Y in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3AXD
- Type
- protein
- Length
- 474 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-glucanase
- EC
- 3.2.1.73
- UniProt
- P17989
- Ligands
- CA
- Pockets
- 4 · best druggability 0.53
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-glucanase (EC 3.2.1.73) | protein | 241 | 7% helix, 50% strand | P17989 |
| B | Beta-glucanase (EC 3.2.1.73) | protein | 233 | 6% helix, 52% strand | P17989 |
Ligands and binding sites
- CA · Calcium ion · metal · 8 copies · chains A, B
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 217 | 0.53 | 0.77 | 24 | TRS |
| 2 | 187 | 0.51 | 0.77 | 26 | TRS |
| 3 | 84 | 0.34 | 0.75 | 25 | empty |
| 4 | 58 | 0.27 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 698 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 3AXD · The truncated Fibrobacter succinogenes 1,3-1,4-beta-D-glucanase V18Y/W203Y in apo-form · the same entry in another collection · chain A against A, TM-score 1.00
- P17989 · AlphaFold monomer V2.0 prediction for beta-glucanase (P17989) · a predicted model of the same protein · chain B 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 P17989
- Elsewhere: RCSB PDB 3AXD · PDBe 3AXD · UniProt P17989
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.