Research workbench
Crystal structure of zika virus envelope glycoprotein in complex with the divalent F(AB')2 fragment of the broadly neutralizing human antibody EDE1 C10
Analyse Crystal structure of zika virus envelope glycoprotein in complex with the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7A3U
- Type
- protein
- Length
- 826 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Envelope protein; EDE1 C10 antibody divalent F(AB')2 fragment; EDE1 C10 divalent F(AB')2…
- EC
- 3.4.21.91, 3.6.1.15, 3.6.4.13
- UniProt
- A0A1U9YHM2
- Pockets
- 9 · best druggability 0.73
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Envelope protein (EC 3.4.21.91, 3.6.1.15, 3.6.4.13) | protein | 398 | 8% helix, 51% strand | A0A1U9YHM2 |
| H | EDE1 C10 antibody divalent F(AB')2 fragment | protein | 224 | 7% helix, 49% strand | — |
| L | EDE1 C10 divalent F(AB')2 fragment | protein | 204 | 6% helix, 44% strand | — |
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 981 | 0.73 | 0.77 | 89 | empty |
| 2 | 628 | 0.63 | 0.74 | 65 | empty |
| 3 | 210 | 0.58 | 0.80 | 42 | empty |
| 4 | 226 | 0.53 | 0.77 | 28 | empty |
| 5 | 120 | 0.53 | 0.81 | 25 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1938 Ų buried · 12 hydrogen bonds · protein-protein
- A–H · 455 Ų buried · 6 hydrogen bonds · protein-protein
- A–L · 378 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 7A3U · Crystal structure of Zika virus envelope glycoprotein in complex with the divalent… · 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 A0A1U9YHM2
- Elsewhere: RCSB PDB 7A3U · PDBe 7A3U · UniProt A0A1U9YHM2
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