Research workbench
Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation
Analyse Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CE7
- Type
- protein
- Length
- 1,035 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Unsaturated 3S-rhamnoglycuronyl hydrolase
- EC
- 3.2.1.172
- UniProt
- L7P9J4
- Ligands
- NO3
- Pockets
- 9 · best druggability 0.79
Structure
x-ray diffraction · 3 distinct chains · 56% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Unsaturated 3S-rhamnoglycuronyl hydrolase (EC 3.2.1.172) | protein | 345 | 56% helix, 3% strand | L7P9J4 |
| B | Unsaturated 3S-rhamnoglycuronyl hydrolase (EC 3.2.1.172) | protein | 348 | 55% helix, 2% strand | L7P9J4 |
| C | Unsaturated 3S-rhamnoglycuronyl hydrolase (EC 3.2.1.172) | protein | 342 | 56% helix, 3% strand | L7P9J4 |
Ligands and binding sites
- NO3 · Nitrate ion · ion · 4 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1106 | 0.79 | 0.80 | 78 | empty |
| 2 | 550 | 0.66 | 0.77 | 66 | empty |
| 3 | 187 | 0.48 | 0.76 | 21 | empty |
| 4 | 142 | 0.41 | 0.74 | 21 | empty |
| 5 | 87 | 0.38 | 0.76 | 16 | empty |
Interfaces
3 interfaces between chains.
- B–C · 559 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 559 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 534 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 4CE7 · Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to… · the same entry in another collection · chain A against A, TM-score 1.00
- L7P9J4 · AlphaFold monomer V2.0 prediction for unsaturated 3S-rhamnoglycuronyl hydrolase (L7P9J4) · 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 L7P9J4
- Elsewhere: RCSB PDB 4CE7 · PDBe 4CE7 · UniProt L7P9J4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.