MolNFT v1 · #144049 · protein
Mouse immunoglobulin G 2C Fc fragment with complex-type glycan
6BHQ · Igh protein: “Mouse immunoglobulin G 2C Fc fragment with complex-type glycan”. X-ray diffraction, 5 ligands (NAG, MAN, BMA), 2 pockets (best druggability 0.43). MolNFT v1 #144049 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6BHQ
- Type
- protein
- Length
- 407 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Igh protein
- UniProt
- Q58E56
- Ligands
- NAG, MAN, BMA, GAL, FUL
- Pockets
- 2 · best druggability 0.43
Structure
x-ray diffraction · 2 distinct chains · 11% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Igh protein | protein | 208 | 10% helix, 50% strand | Q58E56 |
| B | Igh protein | protein | 199 | 11% helix, 46% strand | Q58E56 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A, B
- MAN · alpha-D-mannopyranose · sugar · 4 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar · 2 copies · chains A, B
- GAL · beta-D-galactopyranose · sugar · 2 copies · chains A, B
- FUL · beta-L-fucopyranose · sugar · 2 copies · chains A, B
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 63 | 0.43 | 0.82 | 22 | empty |
| 2 | 50 | 0.39 | 0.82 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 1134 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 6BHQ · Mouse Immunoglobulin G 2c Fc fragment with complex-type glycan · 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 Q58E56
- Elsewhere: RCSB PDB 6BHQ · PDBe 6BHQ · UniProt Q58E56
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