Research workbench
Chikungunya E1 E2 envelope glycoproteins fitted in semliki forest virus cryo-EM MAP
Analyse Chikungunya E1 E2 envelope glycoproteins fitted in semliki forest virus cryo-EM… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2XFC
- Type
- protein
- Length
- 2,896 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- E1 envelope glycoprotein; E2 envelope glycoprotein
- UniProt
- Q1H8W5
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 2 distinct chains · 3% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D, F, H | E1 envelope glycoprotein | protein | 390 | 4% helix, 44% strand | Q1H8W5 |
| B, E, G, I | E2 envelope glycoprotein | protein | 334 | 2% helix, 50% strand | Q1H8W5 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 925 | 0.85 | 0.86 | 100 | empty |
| 2 | 1083 | 0.84 | 0.85 | 74 | empty |
| 3 | 1045 | 0.84 | 0.85 | 79 | empty |
| 4 | 823 | 0.73 | 0.78 | 58 | empty |
| 5 | 854 | 0.72 | 0.77 | 59 | empty |
Interfaces
12 interfaces between chains.
- F–G · 2743 Ų buried · 43 hydrogen bonds · protein-protein
- A–B · 2611 Ų buried · 54 hydrogen bonds · protein-protein
- H–I · 2542 Ų buried · 46 hydrogen bonds · protein-protein
- D–E · 2541 Ų buried · 37 hydrogen bonds · protein-protein
- D–I · 663 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 56 disulfide (disulfide).
Compared structures
- 2XFC · CHIKUNGUNYA E1 E2 ENVELOPE GLYCOPROTEINS FITTED IN SEMLIKI FOREST VIRUS cryo-EM MAP · 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 Q1H8W5
- Elsewhere: RCSB PDB 2XFC · PDBe 2XFC · UniProt Q1H8W5
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