MolNFT v1 · #187852 · protein
Hendra virus G protein head domain in complex with cross-neutralizing murine antibody HAH1.3
7SYY · Attachment glycoprotein: “Hendra virus G protein head domain in complex with cross-neutralizing murine antibody HAH1.3”. X-ray diffraction, 7 ligands (NAG, MAN, FUC), 8 pockets (best druggability 0.69). MolNFT v1 #187852 on…
- PDB
- 7SYY
- Type
- protein
- Length
- 849 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Attachment glycoprotein; Antibody HAH1.3 heavy chain; Antibody HAH1.3 light chain
- UniProt
- F4YH71
- Ligands
- NAG, MAN, FUC, BMA, ZN, CL, SO4
- Pockets
- 8 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 4% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Attachment glycoprotein | protein | 413 | 3% helix, 47% strand | F4YH71 |
| H | Antibody HAH1.3 heavy chain | protein | 218 | 4% helix, 50% strand | — |
| L | Antibody HAH1.3 light chain | protein | 218 | 7% helix, 51% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, L
- MAN · alpha-D-mannopyranose · sugar · 4 copies · chains H, L, A
- FUC · alpha-L-fucopyranose · sugar · 3 copies · chains A, H
- BMA · beta-D-mannopyranose · sugar · 2 copies · chains L
- ZN · Zinc ion · metal · chains A
- CL · Chloride ion · ion · 10 copies · chains A, H, L
- SO4 · Sulfate ion · ion · 6 copies · chains A, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 566 | 0.69 | 0.78 | 61 | NAG, SO4, CL |
| 2 | 368 | 0.64 | 0.79 | 43 | empty |
| 3 | 108 | 0.51 | 0.82 | 28 | empty |
| 4 | 109 | 0.38 | 0.74 | 25 | empty |
| 5 | 117 | 0.36 | 0.73 | 21 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1856 Ų buried · 11 hydrogen bonds · protein-protein
- A–H · 594 Ų buried · 8 hydrogen bonds · protein-protein
- A–L · 360 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 11 disulfide, 5 glycan (disulfide, N-glycosylation).
Compared structures
- 7SYY · Hendra virus G protein head domain in complex with cross-neutralizing murine antibody… · 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 F4YH71
- Elsewhere: RCSB PDB 7SYY · PDBe 7SYY · UniProt F4YH71
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