MolNFT v1 · #135129 · protein
Structure of a Fc heterodimer
5TPS · Ig gamma-1 chain C region: “Structure of a Fc heterodimer”. X-ray diffraction, 5 ligands (NAG, MAN, BMA), 1 pocket (best druggability 0.44). MolNFT v1 #135129 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5TPS
- Type
- protein
- Length
- 399 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
- NAG, MAN, BMA, GAL, FUC
- Pockets
- 1 · best druggability 0.44
Structure
x-ray diffraction · 2 distinct chains · 12% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Ig gamma-1 chain C region | protein | 192 | 12% helix, 46% strand | P01857 |
| A | Ig gamma-1 chain C region | protein | 207 | 11% helix, 49% strand | P01857 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 7 copies · chains B, A
- MAN · alpha-D-mannopyranose · sugar · 4 copies · chains B, A
- BMA · beta-D-mannopyranose · sugar · 2 copies · chains B, A
- GAL · beta-D-galactopyranose · sugar · 2 copies · chains B, A
- FUC · alpha-L-fucopyranose · sugar · chains A
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 | 115 | 0.44 | 0.78 | 24 | empty |
Interfaces
1 interface between chains.
- B–A · 1092 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 5TPS · Structure of a Fc heterodimer · the same entry in another collection · chain B against B, 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 5TPS · PDBe 5TPS · UniProt P01857
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