Research workbench
Crystal structure of a soluble variant of the monoglyceride lipase from saccharomyces cerevisiae
Analyse Crystal structure of a soluble variant of the monoglyceride lipase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZWN
- Type
- protein
- Length
- 1,237 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Monoglyceride lipase
- EC
- 3.1.1.23
- UniProt
- P28321
- Ligands
- NA, SO4, NO3
- Pockets
- 13 · best druggability 0.82
Structure
x-ray diffraction · 3 distinct chains · 41% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Monoglyceride lipase (EC 3.1.1.23) | protein | 310 | 41% helix, 17% strand | P28321 |
| B | Monoglyceride lipase (EC 3.1.1.23) | protein | 311 | 42% helix, 17% strand | P28321 |
| C, D | Monoglyceride lipase (EC 3.1.1.23) | protein | 308 | 41% helix, 17% strand | P28321 |
Ligands and binding sites
- NA · Sodium ion · metal · chains D
- SO4 · Sulfate ion · ion · 2 copies · chains B, C
- NO3 · Nitrate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 219 | 0.82 | 0.95 | 36 | empty |
| 2 | 228 | 0.82 | 0.95 | 30 | empty |
| 3 | 196 | 0.82 | 0.96 | 33 | empty |
| 4 | 329 | 0.79 | 0.89 | 42 | empty |
| 5 | 219 | 0.63 | 0.83 | 33 | empty |
Interfaces
4 interfaces between chains.
- B–C · 800 Ų buried · 4 hydrogen bonds · protein-protein
- C–D · 589 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 442 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 31 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4ZWN · Crystal Structure of a Soluble Variant of the Monoglyceride Lipase from Saccharomyces… · the same entry in another collection · chain A against A, TM-score 1.00
- P28321 · AlphaFold monomer V2.0 prediction for monoglyceride lipase (P28321) · a predicted model of the same protein · chain C 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 P28321
- Elsewhere: RCSB PDB 4ZWN · PDBe 4ZWN · UniProt P28321
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.