Research workbench
Gfral receptor bound with two antibody fabs (3P10, 25M22)
Analyse Gfral receptor bound with two antibody fabs (3P10, 25M22) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WMW
- Type
- protein
- Length
- 1,060 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gdnf family receptor alpha-like; FAB3P10 heavy chain fragment; FAB3P10 light chain…
- UniProt
- Q6UXV0
- Pockets
- 10 · best druggability 0.71
Structure
x-ray diffraction · 5 distinct chains · 16% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Gdnf family receptor alpha-like | protein | 192 | 62% helix, 2% strand | Q6UXV0 |
| H | FAB3P10 heavy chain fragment | protein | 212 | 3% helix, 42% strand | — |
| L | FAB3P10 light chain | protein | 218 | 5% helix, 46% strand | — |
| M | FAB25M22 heavy chain fragment | protein | 222 | 7% helix, 54% strand | — |
| N | FAB25M22 light chain | protein | 216 | 7% helix, 45% strand | — |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 499 | 0.71 | 0.81 | 51 | empty |
| 2 | 380 | 0.68 | 0.81 | 47 | empty |
| 3 | 425 | 0.58 | 0.75 | 48 | empty |
| 4 | 240 | 0.51 | 0.75 | 31 | empty |
| 5 | 212 | 0.48 | 0.75 | 38 | empty |
Interfaces
6 interfaces between chains.
- M–N · 2149 Ų buried · 18 hydrogen bonds · protein-protein
- H–L · 1723 Ų buried · 12 hydrogen bonds · protein-protein
- B–M · 839 Ų buried · 13 hydrogen bonds · protein-protein
- B–H · 519 Ų buried · 12 hydrogen bonds · protein-protein
- B–L · 427 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 19 disulfide (disulfide).
Compared structures
- 6WMW · GFRAL receptor bound with two antibody Fabs (3P10, 25M22) · the same entry in another collection · chain B against B, TM-score 1.00
- Q6UXV0 · AlphaFold monomer V2.0 prediction for gdnf family receptor alpha-like (Q6UXV0) · 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 Q6UXV0
- Elsewhere: RCSB PDB 6WMW · PDBe 6WMW · UniProt Q6UXV0
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