Research workbench
Crystal structure of a 1:1:1 FGF23-FGFR1C-aklotho ternary complex
Analyse Crystal structure of a 1:1:1 FGF23-FGFR1C-aklotho ternary complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5W21
- Type
- protein
- Length
- 1,317 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Klotho; Fibroblast growth factor 23; Fibroblast growth factor receptor 1
- EC
- 3.2.1.31, 2.7.10.1
- UniProt
- Q9UEF7, Q9GZV9, P11362
- Ligands
- NAG, ZN
- Pockets
- 14 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 29% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Klotho (EC 3.2.1.31) | protein | 922 | 40% helix, 16% strand | Q9UEF7 |
| B | Fibroblast growth factor 23 | protein | 182 | 2% helix, 29% strand | Q9GZV9 |
| C | Fibroblast growth factor receptor 1 (EC 2.7.10.1) | protein | 213 | 5% helix, 42% strand | P11362 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 7 copies · chains A, B
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1168 | 0.81 | 0.82 | 107 | empty |
| 2 | 701 | 0.73 | 0.79 | 58 | empty |
| 3 | 1037 | 0.72 | 0.76 | 60 | empty |
| 4 | 324 | 0.59 | 0.77 | 36 | empty |
| 5 | 242 | 0.55 | 0.78 | 37 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1936 Ų buried · 28 hydrogen bonds · protein-protein
- B–C · 1543 Ų buried · 18 hydrogen bonds · protein-protein
- A–C · 1186 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 glycan, 5 disulfide (N-glycosylation, disulfide).
Compared structures
- 5W21 · Crystal Structure of a 1:1:1 FGF23-FGFR1c-aKlotho Ternary Complex · the same entry in another collection · chain C against C, TM-score 1.00
- Q9UEF7 · AlphaFold monomer V2.0 prediction for klotho (Q9UEF7) · a predicted model of the same protein · chain A against A, TM-score 0.97
- Q9GZV9 · AlphaFold monomer V2.0 prediction for fibroblast growth factor 23 (Q9GZV9) · a predicted model of the same protein · chain B against A, TM-score 0.94
- P11362 · AlphaFold monomer V2.0 prediction for fibroblast growth factor receptor 1 (P11362) · a predicted model of the same protein · chain C against A, TM-score 0.58
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 Q9UEF7
- Every structure of UniProt Q9GZV9
- Every structure of UniProt P11362
- Elsewhere: RCSB PDB 5W21 · PDBe 5W21 · UniProt Q9UEF7 · UniProt Q9GZV9 · UniProt P11362
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