Research workbench
Fibroblast growth factor receptor 4 kinase domain (449-753) in complex with irreversible ligand CGA159527
Analyse Fibroblast growth factor receptor 4 kinase domain (449-753) in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NUD
- Type
- protein
- Length
- 538 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fibroblast growth factor receptor 4
- EC
- 2.7.10.1
- UniProt
- P22455
- Ligands
- 99K
- Pockets
- 5 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fibroblast growth factor receptor 4 (EC 2.7.10.1) | protein | 267 | 42% helix, 16% strand | P22455 |
| B | Fibroblast growth factor receptor 4 (EC 2.7.10.1) | protein | 271 | 41% helix, 14% strand | P22455 |
Ligands and binding sites
- 99K · 3-chloranyl-~{N}-(3-nitropyridin-2-yl)-5-(trifluoromethyl)pyridin-2-amine · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 243 | 0.56 | 0.78 | 34 | 99K |
| 2 | 228 | 0.56 | 0.78 | 32 | 99K |
| 3 | 210 | 0.49 | 0.75 | 26 | empty |
| 4 | 73 | 0.32 | 0.74 | 17 | empty |
| 5 | 50 | 0.31 | 0.77 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 778 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 covalent (covalent ligand).
Compared structures
- 5NUD · Fibroblast growth factor receptor 4 kinase domain (449-753) in complex with irreversible… · the same entry in another collection · chain A against A, TM-score 1.00
- P22455 · AlphaFold monomer V2.0 prediction for fibroblast growth factor receptor 4 (P22455) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 P22455
- Elsewhere: RCSB PDB 5NUD · PDBe 5NUD · UniProt P22455
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.