MolNFT v1 · #86465 · protein
Crystal structure of human IgG Fc bearing hybrid-type glycans
4B7I · Ig gamma-1 chain C region: “Crystal structure of human IgG Fc bearing hybrid-type glycans”. X-ray diffraction, 5 ligands (MAN, NAG, BMA), 3 pockets (best druggability 0.31). MolNFT v1 #86465 on GenesisL1: 3D structure, binding sites…
- PDB
- 4B7I
- Type
- protein
- Length
- 398 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
- MAN, NAG, BMA, FUC, CL
- Pockets
- 3 · best druggability 0.31
Structure
x-ray diffraction · 2 distinct chains · 12% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ig gamma-1 chain C region | protein | 208 | 11% helix, 47% strand | P01857 |
| B | Ig gamma-1 chain C region | protein | 190 | 12% helix, 45% strand | P01857 |
Ligands and binding sites
- MAN · alpha-D-mannopyranose · sugar · 4 copies · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
- BMA · beta-D-mannopyranose · sugar · chains A
- FUC · alpha-L-fucopyranose · sugar · chains A
- CL · Chloride ion · ion · 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 | 71 | 0.31 | 0.74 | 16 | empty |
| 2 | 51 | 0.31 | 0.77 | 16 | empty |
| 3 | 53 | 0.28 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1200 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 4B7I · Crystal Structure of Human IgG Fc Bearing Hybrid-type Glycans · 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 4B7I · PDBe 4B7I · UniProt P01857
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