Research workbench
Lon protease from thermus thermophilus
Analyse Lon protease from thermus thermophilus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7P6U
- Type
- protein
- Length
- 4,639 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lon protease; (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)
- EC
- 3.4.21.53
- UniProt
- Q9LCX1
- Ligands
- ANP
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 3 distinct chains · 41% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D, E, F | Lon protease (EC 3.4.21.53) | protein | 772 | 42% helix, 16% strand | Q9LCX1 |
| C | Lon protease (EC 3.4.21.53) | protein | 772 | 41% helix, 15% strand | Q9LCX1 |
| S | (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) | protein | 7 | 0% helix, 14% strand | — |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · 5 copies · chains A, B, C, D, E
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 | 986 | 0.84 | 0.85 | 122 | empty |
| 2 | 983 | 0.84 | 0.85 | 102 | empty |
| 3 | 929 | 0.84 | 0.85 | 109 | ANP |
| 4 | 1152 | 0.81 | 0.83 | 105 | empty |
| 5 | 689 | 0.81 | 0.86 | 55 | ANP |
Interfaces
20 interfaces between chains.
- B–C · 4126 Ų buried · 56 hydrogen bonds · protein-protein
- C–D · 3804 Ų buried · 64 hydrogen bonds · protein-protein
- A–B · 3785 Ų buried · 59 hydrogen bonds · protein-protein
- D–E · 3482 Ų buried · 39 hydrogen bonds · protein-protein
- A–F · 3027 Ų buried · 29 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 covalent (covalent ligand).
Compared structures
- 7P6U · Lon protease from Thermus Thermophilus · 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 Q9LCX1
- Elsewhere: RCSB PDB 7P6U · PDBe 7P6U · UniProt Q9LCX1
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