Research workbench
Structure-based drug design of novel ASK1 inhibitors using a fully integrated lead optimization strategy
Analyse Structure-based drug design of novel ASK1 inhibitors using a fully integrated… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5V19
- Type
- protein
- Length
- 510 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mitogen-activated protein kinase kinase kinase 5
- EC
- 2.7.11.25
- UniProt
- Q99683
- Ligands
- 8V4
- Pockets
- 6 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mitogen-activated protein kinase kinase kinase 5 (EC 2.7.11.25) | protein | 250 | 37% helix, 20% strand | Q99683 |
| B | Mitogen-activated protein kinase kinase kinase 5 (EC 2.7.11.25) | protein | 260 | 42% helix, 19% strand | Q99683 |
Ligands and binding sites
- 8V4 · N-(1-ethyl-1H-pyrazol-4-yl)furan-3-carboxamide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 174 | 0.61 | 0.83 | 24 | 8V4 |
| 2 | 111 | 0.59 | 0.85 | 18 | empty |
| 3 | 194 | 0.59 | 0.81 | 27 | 8V4 |
| 4 | 144 | 0.47 | 0.77 | 26 | empty |
| 5 | 69 | 0.34 | 0.76 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 624 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 5V19 · Structure-based drug design of novel ASK1 inhibitors using a fully integrated lead… · the same entry in another collection · chain A against A, TM-score 1.00
- Q99683 · AlphaFold monomer V2.0 prediction for mitogen-activated protein kinase kinase kinase 5… · a predicted model of the same protein · chain B against A, TM-score 0.99
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 Q99683
- Elsewhere: RCSB PDB 5V19 · PDBe 5V19 · UniProt Q99683
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