Research workbench
Crystal structure of the activated FGF receptor 2 (FGFR2) kinase domain in complex with the CSH2 domain of phospholipase C gamma (plcgamma)
Analyse Crystal structure of the activated FGF receptor 2 (FGFR2) kinase domain in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5EG3
- Type
- protein
- Length
- 415 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fibroblast growth factor receptor 2; 1-phosphatidylinositol 4,5-bisphosphate…
- EC
- 2.7.10.1, 3.1.4.11
- UniProt
- P21802, P10686
- Ligands
- ACP, MG
- Pockets
- 3 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fibroblast growth factor receptor 2 (EC 2.7.10.1) | protein | 302 | 38% helix, 18% strand | P21802 |
| B | 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-1 (EC 3.1.4.11) | protein | 113 | 24% helix, 33% strand | P10686 |
Ligands and binding sites
- ACP · Phosphomethylphosphonic acid adenylate ester · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 499 | 0.70 | 0.80 | 52 | ACP, MG |
| 2 | 222 | 0.49 | 0.75 | 33 | empty |
| 3 | 68 | 0.33 | 0.75 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 515 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 5EG3 · Crystal Structure of the Activated FGF Receptor 2 (FGFR2) Kinase Domain in complex with… · the same entry in another collection · chain A against A, 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 A against A, TM-score 0.97
- P10686 · AlphaFold monomer V2.0 prediction for 1-phosphatidylinositol 4,5-bisphosphate… · a predicted model of the same protein · chain B against A, TM-score 0.94
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
- Every structure of UniProt P10686
- Elsewhere: RCSB PDB 5EG3 · PDBe 5EG3 · UniProt P21802 · UniProt P10686
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