MolNFT v1 · #87173 · protein
Heterodimeric Fc antibody azymetric variant 1
4BSV · Heterodimeric Fc antibody azymetric variant 2: “Heterodimeric Fc antibody azymetric variant 1”. X-ray diffraction, 6 ligands (NAG, MAN, FUC), 3 pockets (best druggability 0.33). MolNFT v1 #87173 on GenesisL1: 3D structure, binding…
- PDB
- 4BSV
- Type
- protein
- Length
- 420 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heterodimeric Fc antibody azymetric variant 2
- UniProt
- P01857
- Ligands
- NAG, MAN, FUC, BMA, GAL, IOD
- Pockets
- 3 · best druggability 0.33
Structure
x-ray diffraction · 2 distinct chains · 11% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Heterodimeric Fc antibody azymetric variant 2 | protein | 210 | 11% helix, 48% strand | P01857 |
| B | Heterodimeric Fc antibody azymetric variant 2 | protein | 210 | 10% helix, 47% strand | P01857 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, B
- MAN · alpha-D-mannopyranose · sugar · 4 copies · chains A, B
- FUC · alpha-L-fucopyranose · sugar · 2 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar · 2 copies · chains A, B
- GAL · beta-D-galactopyranose · sugar · 2 copies · chains A, B
- IOD · Iodide ion · ion · 3 copies · chains B
- EDO · 1,2-ethanediol · additive · 9 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 90 | 0.33 | 0.73 | 22 | empty |
| 2 | 52 | 0.28 | 0.75 | 18 | EDO |
| 3 | 51 | 0.27 | 0.75 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1144 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 4BSV · Heterodimeric Fc Antibody Azymetric Variant 1 · 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 4BSV · PDBe 4BSV · UniProt P01857
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