MolNFT v1 · #116055 · protein
Structure of ovine granulocyte-macrophage colony-stimulating factor
5D22: “Structure of ovine granulocyte-macrophage colony-stimulating factor”. X-ray diffraction, 1 pocket (best druggability 0.32). MolNFT v1 #116055 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5D22
- Type
- protein
- Length
- 241 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Granulocyte-macrophage colony-stimulating factor
- UniProt
- P28773
- Pockets
- 1 · best druggability 0.32
Structure
x-ray diffraction · 2 distinct chains · 52% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Granulocyte-macrophage colony-stimulating factor | protein | 120 | 53% helix, 8% strand | P28773 |
| B | Granulocyte-macrophage colony-stimulating factor | protein | 121 | 52% helix, 8% strand | P28773 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 73 | 0.32 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 374 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5D22 · Structure of ovine granulocyte-macrophage colony-stimulating factor · the same entry in another collection · chain A against A, TM-score 1.00
- P28773 · AlphaFold monomer V2.0 prediction for granulocyte-macrophage colony- stimulating factor… · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P28773
- Elsewhere: RCSB PDB 5D22 · PDBe 5D22 · UniProt P28773
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