MolNFT v1 · #28504 · protein
The structure of a V6A variant of clpp.
1YG8 · ATP-dependent clp protease proteolytic subunit: “The structure of a V6A variant of clpp.”. X-ray diffraction, 20 pockets (best druggability 0.81). MolNFT v1 #28504 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1YG8
- Type
- protein
- Length
- 5,012 residues
- Chains
- 28
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP-dependent clp protease proteolytic subunit
- EC
- 3.4.21.92
- UniProt
- P19245
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b | ATP-dependent clp protease proteolytic subunit (EC 3.4.21.92) | protein | 179 | 46% helix, 24% strand | P19245 |
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 | 991 | 0.81 | 0.82 | 105 | empty |
| 2 | 721 | 0.80 | 0.84 | 102 | empty |
| 3 | 831 | 0.79 | 0.82 | 101 | empty |
| 4 | 957 | 0.79 | 0.81 | 117 | empty |
| 5 | 686 | 0.78 | 0.83 | 61 | empty |
Interfaces
76 interfaces between chains.
- O–P · 1647 Ų buried · 28 hydrogen bonds · protein-protein
- J–K · 1646 Ų buried · 15 hydrogen bonds · protein-protein
- T–U · 1631 Ų buried · 20 hydrogen bonds · protein-protein
- D–E · 1621 Ų buried · 23 hydrogen bonds · protein-protein
- E–F · 1602 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 1YG8 · The structure of a V6A variant of ClpP. · the same entry in another collection · chain Z against Z, 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 P19245
- Elsewhere: RCSB PDB 1YG8 · PDBe 1YG8 · UniProt P19245
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.