MolNFT v1 · #148311 · protein
Structure of a Fc mutatnt
6F2Z · Fc fragment of antiboy: “Structure of a Fc mutatnt”. X-ray diffraction, 5 ligands (NAG, MAN, BMA), 2 pockets (best druggability 0.46). MolNFT v1 #148311 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6F2Z
- Type
- protein
- Length
- 417 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fc fragment of antiboy
- Ligands
- NAG, MAN, BMA, GAL, FUL
- Pockets
- 2 · best druggability 0.46
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Fc fragment of antiboy | protein | 208 | 10% helix, 50% strand | — |
| A | Fc fragment of antiboy | protein | 209 | 11% helix, 48% strand | — |
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
- FUL · beta-L-fucopyranose · sugar · 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 | 178 | 0.46 | 0.75 | 28 | empty |
| 2 | 190 | 0.44 | 0.73 | 23 | empty |
Interfaces
1 interface between chains.
- B–A · 667 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 6F2Z · Structure of a Fc mutant · 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
- Elsewhere: RCSB PDB 6F2Z · PDBe 6F2Z
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