Research workbench
An automated microscale thermophoresis screening approach for fragment-based lead discovery
Analyse An automated microscale thermophoresis screening approach for fragment-based… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5BX0
- Type
- protein
- Length
- 315 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dual specificity mitogen-activated protein kinase kinase 1
- EC
- 2.7.12.2
- UniProt
- Q02750
- Ligands
- 4W5
- Pockets
- 6 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dual specificity mitogen-activated protein kinase kinase 1 (EC 2.7.12.2) | protein | 315 | 44% helix, 14% strand | Q02750 |
Ligands and binding sites
- 4W5 · ethyl 2H-indazole-5-carboxylate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 290 | 0.72 | 0.85 | 35 | empty |
| 2 | 183 | 0.65 | 0.85 | 31 | 4W5 |
| 3 | 142 | 0.56 | 0.82 | 30 | empty |
| 4 | 217 | 0.54 | 0.78 | 21 | empty |
| 5 | 68 | 0.48 | 0.83 | 15 | empty |
Compared structures
- 5BX0 · An Automated Microscale Thermophoresis Screening Approach for Fragment-Based Lead… · the same entry in another collection · chain A against A, TM-score 1.00
- Q02750 · AlphaFold monomer V2.0 prediction for dual specificity mitogen- activated protein kinase… · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q02750
- Elsewhere: RCSB PDB 5BX0 · PDBe 5BX0 · UniProt Q02750
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