MolNFT v1 · #34226 · protein
Crystal structure of the human gcsf-receptor signaling complex
2D9Q · CSF3: “Crystal structure of the human gcsf-receptor signaling complex”. X-ray diffraction, 1 ligand (NAG), 3 pockets (best druggability 0.48). MolNFT v1 #34226 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2D9Q
- Type
- protein
- Length
- 467 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CSF3; Granulocyte colony-stimulating factor receptor
- UniProt
- P09919, Q99062
- Ligands
- NAG
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 24% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CSF3 | protein | 168 | 60% helix, 0% strand | P09919 |
| B | Granulocyte colony-stimulating factor receptor | protein | 299 | 3% helix, 45% strand | Q99062 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 122 | 0.48 | 0.79 | 28 | empty |
| 2 | 106 | 0.47 | 0.80 | 18 | empty |
| 3 | 82 | 0.42 | 0.79 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 737 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 2D9Q · Crystal Structure of the Human GCSF-Receptor Signaling Complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q99062 · AlphaFold monomer V2.0 prediction for granulocyte colony-stimulating factor receptor… · a predicted model of the same protein · chain B against A, TM-score 0.96
- P09919 · AlphaFold monomer V2.0 prediction for granulocyte colony-stimulating factor (P09919) · a predicted model of the same protein · chain A 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 P09919
- Every structure of UniProt Q99062
- Elsewhere: RCSB PDB 2D9Q · PDBe 2D9Q · UniProt P09919 · UniProt Q99062
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