Research workbench
Structure of mouse interleukin-34 in complex with mouse fms
Analyse Structure of mouse interleukin-34 in complex with mouse fms in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4EXP
- Type
- protein
- Length
- 454 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Interleukin-34; Macrophage colony-stimulating factor 1 receptor
- EC
- 2.7.10.1
- UniProt
- Q8R1R4, P09581
- Ligands
- NAG
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 25% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Interleukin-34 | protein | 171 | 58% helix, 5% strand | Q8R1R4 |
| X | Macrophage colony-stimulating factor 1 receptor (EC 2.7.10.1) | protein | 283 | 5% helix, 49% strand | P09581 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A, X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 619 | 0.74 | 0.81 | 65 | empty |
| 2 | 215 | 0.58 | 0.80 | 32 | NAG |
| 3 | 95 | 0.44 | 0.78 | 13 | NAG |
| 4 | 55 | 0.33 | 0.78 | 15 | empty |
| 5 | 65 | 0.32 | 0.75 | 23 | empty |
Interfaces
1 interface between chains.
- A–X · 1205 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide, 4 glycan (disulfide, N-glycosylation).
Compared structures
- 4EXP · Structure of mouse Interleukin-34 in complex with mouse FMS · the same entry in another collection · chain A against A, TM-score 1.00
- Q8R1R4 · AlphaFold monomer V2.0 prediction for interleukin-34 (Q8R1R4) · a predicted model of the same protein · chain A against A, TM-score 0.94
- P09581 · AlphaFold monomer V2.0 prediction for macrophage colony-stimulating factor 1 receptor… · a predicted model of the same protein · chain X against A, TM-score 0.63
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 Q8R1R4
- Every structure of UniProt P09581
- Elsewhere: RCSB PDB 4EXP · PDBe 4EXP · UniProt Q8R1R4 · UniProt P09581
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