MolNFT v1 · #117019 · protein
Fc K392D/K409D homodimer
5DVO · Ig gamma-1 chain C region: “Fc K392D/K409D homodimer”. X-ray diffraction, 1 ligand (SO4), 3 pockets (best druggability 0.82). MolNFT v1 #117019 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5DVO
- Type
- protein
- Length
- 410 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ig gamma-1 chain C region
- UniProt
- P01857
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.82
Structure
x-ray diffraction · 1 distinct chain · 8% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Ig gamma-1 chain C region | protein | 205 | 8% helix, 51% strand | P01857 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1181 | 0.82 | 0.83 | 122 | empty |
| 2 | 68 | 0.28 | 0.73 | 16 | empty |
| 3 | 59 | 0.26 | 0.73 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1648 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5DVO · Fc K392D/K409D homodimer · the same entry in another collection · chain A against A, TM-score 1.00
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 P01857
- Elsewhere: RCSB PDB 5DVO · PDBe 5DVO · UniProt P01857
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