Research workbench
Growth FACTOR/RECEPTOR complex
Analyse Growth FACTOR/RECEPTOR complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GH0
- Type
- protein
- Length
- 598 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Artemin; Gdnf family receptor alpha-3
- UniProt
- Q5T4W7, O60609
- Ligands
- NAG, MAN, BMA
- Pockets
- 4 · best druggability 0.46
Structure
x-ray diffraction · 4 distinct chains · 46% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Artemin | protein | 100 | 17% helix, 44% strand | Q5T4W7 |
| D | Artemin | protein | 99 | 15% helix, 44% strand | Q5T4W7 |
| A | Gdnf family receptor alpha-3 | protein | 200 | 61% helix, 5% strand | O60609 |
| B | Gdnf family receptor alpha-3 | protein | 199 | 62% helix, 5% strand | O60609 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains A, B
- MAN · alpha-D-mannopyranose · sugar · 2 copies
- BMA · beta-D-mannopyranose · sugar
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 157 | 0.46 | 0.76 | 29 | empty |
| 2 | 78 | 0.38 | 0.77 | 17 | empty |
| 3 | 53 | 0.34 | 0.79 | 17 | empty |
| 4 | 50 | 0.33 | 0.78 | 14 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1736 Ų buried · 19 hydrogen bonds · protein-protein
- C–A · 848 Ų buried · 15 hydrogen bonds · protein-protein
- D–B · 826 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 27 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 2GH0 · Growth factor/receptor complex · the same entry in another collection · chain B against B, TM-score 1.00
- O60609 · AlphaFold monomer V2.0 prediction for gdnf family receptor alpha-3 (O60609) · a predicted model of the same protein · chain B against A, TM-score 0.99
- Q5T4W7 · AlphaFold monomer V2.0 prediction for artemin (Q5T4W7) · a predicted model of the same protein · chain C 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 Q5T4W7
- Every structure of UniProt O60609
- Elsewhere: RCSB PDB 2GH0 · PDBe 2GH0 · UniProt Q5T4W7 · UniProt O60609
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.