MolNFT v1 · #136744 · protein
Mevalonate diphosphate mediated ATP binding mechanism of the mevalonate diphosphate decarboxylase from enterococcus faecalis
5V2M: “Mevalonate diphosphate mediated ATP binding mechanism of the mevalonate diphosphate decarboxylase from…”. X-ray diffraction, 1 ligand (SO4), 2 pockets (best druggability 0.61). MolNFT v1 #136744 on GenesisL1: 3D structure, binding…
- PDB
- 5V2M
- Type
- protein
- Length
- 311 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mevalonate diphosphate decarboxylase
- UniProt
- Q9FD68
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.61
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mevalonate diphosphate decarboxylase | protein | 311 | 41% helix, 28% strand | Q9FD68 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 356 | 0.61 | 0.77 | 39 | SO4 |
| 2 | 88 | 0.48 | 0.81 | 18 | empty |
Compared structures
- 5V2M · Mevalonate diphosphate mediated ATP binding mechanism of the mevalonate diphosphate… · 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
- Every structure of UniProt Q9FD68
- Elsewhere: RCSB PDB 5V2M · PDBe 5V2M · UniProt Q9FD68
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