Research workbench
Zika specific antibody, zv-48, bound to zika envelope diii
Analyse Zika specific antibody, zv-48, bound to zika envelope diii in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5KVE
- Type
- protein
- Length
- 331 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Genome polyprotein; Zv-48 antibody scfv
- UniProt
- A0A142DS37
- Ligands
- NA, SO4
- Pockets
- 4 · best druggability 0.36
Structure
x-ray diffraction · 2 distinct chains · 5% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Genome polyprotein | protein | 101 | 0% helix, 47% strand | A0A142DS37 |
| L | Zv-48 antibody scfv | protein | 230 | 7% helix, 49% strand | — |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains E, L
- SO4 · Sulfate ion · ion · 5 copies · chains E, L
- EDO · 1,2-ethanediol · additive · 2 copies · chains E, L
- ACT · Acetate ion · additive · chains E, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 66 | 0.36 | 0.77 | 18 | empty |
| 2 | 57 | 0.35 | 0.78 | 21 | empty |
| 3 | 71 | 0.32 | 0.75 | 20 | empty |
| 4 | 65 | 0.28 | 0.73 | 15 | empty |
Interfaces
1 interface between chains.
- E–L · 865 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 5KVE · Zika specific antibody, ZV-48, bound to ZIKA envelope DIII · the same entry in another collection · chain E against E, 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 A0A142DS37
- Elsewhere: RCSB PDB 5KVE · PDBe 5KVE · UniProt A0A142DS37
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.