Research workbench
Plasmodium vivax M17 leucyl aminopeptidase pv-M17
Analyse Plasmodium vivax M17 leucyl aminopeptidase pv-M17 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7K5K
- Type
- protein
- Length
- 3,270 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- M17 leucyl aminopeptidase, putative
- EC
- 3.4.11.1
- UniProt
- A0A1G4HHP8
- Ligands
- MN, CO3
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 1 distinct chain · 31% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | M17 leucyl aminopeptidase, putative (EC 3.4.11.1) | protein | 545 | 31% helix, 19% strand | A0A1G4HHP8 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 12 copies · chains A, B, C, D, E, F
- CO3 · Carbonate ion · ion · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1053 | 0.77 | 0.79 | 103 | empty |
| 2 | 459 | 0.74 | 0.83 | 59 | empty |
| 3 | 809 | 0.72 | 0.77 | 70 | CO3 |
| 4 | 785 | 0.71 | 0.77 | 71 | CO3 |
| 5 | 767 | 0.71 | 0.77 | 67 | empty |
Interfaces
12 interfaces between chains.
- D–F · 1457 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 1452 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1451 Ų buried · 17 hydrogen bonds · protein-protein
- B–C · 1449 Ų buried · 16 hydrogen bonds · protein-protein
- D–E · 1448 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 7K5K · Plasmodium vivax M17 leucyl aminopeptidase Pv-M17 · 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 A0A1G4HHP8
- Elsewhere: RCSB PDB 7K5K · PDBe 7K5K · UniProt A0A1G4HHP8
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.