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Crystal structure of FGF receptor 2 tyrosine kinase domain harboring the D650V activating mutation
Analyse Crystal structure of FGF receptor 2 tyrosine kinase domain harboring the D650V… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5UGL
- Type
- protein
- Length
- 556 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fibroblast growth factor receptor 2
- EC
- 2.7.10.1
- UniProt
- P21802
- Ligands
- ANP, SO4
- Pockets
- 7 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Fibroblast growth factor receptor 2 (EC 2.7.10.1) | protein | 271 | 41% helix, 18% strand | P21802 |
| A | Fibroblast growth factor receptor 2 (EC 2.7.10.1) | protein | 285 | 39% helix, 19% strand | P21802 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · 2 copies · chains B, A
- SO4 · Sulfate ion · ion · 2 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1187 | 0.83 | 0.84 | 87 | ANP |
| 2 | 104 | 0.59 | 0.86 | 16 | SO4 |
| 3 | 111 | 0.40 | 0.76 | 24 | empty |
| 4 | 87 | 0.36 | 0.75 | 17 | empty |
| 5 | 52 | 0.33 | 0.78 | 10 | empty |
Interfaces
1 interface between chains.
- B–A · 1328 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 5UGL · Crystal Structure of FGF Receptor 2 Tyrosine Kinase Domain Harboring the D650V Activating… · the same entry in another collection · chain B against B, TM-score 1.00
- P21802 · AlphaFold monomer V2.0 prediction for fibroblast growth factor receptor 2 (P21802) · 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 P21802
- Elsewhere: RCSB PDB 5UGL · PDBe 5UGL · UniProt P21802
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