MolNFT v1 · #5235 · protein
Crystal structure of the ebola virus membrane-fusion subunit, GP2, from the envelope glycoprotein ectodomain
1EBO · Ebola virus envelope protein chimera consisting of a…: “Crystal structure of the ebola virus membrane-fusion subunit, GP2, from the envelope glycoprotein ectodomain”. X-ray diffraction, 2 ligands (ZN, CL), 1 pocket (best…
- PDB
- 1EBO
- Type
- protein
- Length
- 671 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ebola virus envelope protein chimera consisting of a fragment of GCN4 zipper cloned…
- UniProt
- Q913A3
- Ligands
- ZN, CL
- Pockets
- 1 · best druggability 0.59
Structure
x-ray diffraction · 3 distinct chains · 87% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D | Ebola virus envelope protein chimera consisting of a fragment of GCN4 zipper cloned N-terminal to a fragment of GP2 | protein | 112 | 88% helix, 0% strand | Q913A3 |
| C, E | Ebola virus envelope protein chimera consisting of a fragment of GCN4 zipper cloned N-terminal to a fragment of GP2 | protein | 111 | 87% helix, 0% strand | — |
| F | Ebola virus envelope protein chimera consisting of a fragment of GCN4 zipper cloned N-terminal to a fragment of GP2 | protein | 113 | 85% helix, 0% strand | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 3 copies · chains D, F, A
- CL · Chloride ion · ion · 2 copies · chains D, E, F, A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 90 | 0.59 | 0.87 | 22 | empty |
Interfaces
13 interfaces between chains.
- A–C · 2146 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 2117 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 2112 Ų buried · 9 hydrogen bonds · protein-protein
- D–F · 2107 Ų buried · 11 hydrogen bonds · protein-protein
- E–F · 2032 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1EBO · Crystal structure of the ebola virus membrane-fusion subunit, GP2, from the envelope… · 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 Q913A3
- Elsewhere: RCSB PDB 1EBO · PDBe 1EBO · UniProt Q913A3
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