Research workbench
Crystal structure of the sindbis virus E2-E1 heterodimer at low pH
Analyse Crystal structure of the sindbis virus E2-E1 heterodimer at low pH in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3MUU
- Type
- protein
- Length
- 3,730 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Structural polyprotein
- EC
- 3.4.21.-
- UniProt
- P03316
- Ligands
- NAG, MAN, BMA
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 6 distinct chains · 2% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Structural polyprotein (EC 3.4.21.-) | protein | 623 | 2% helix, 43% strand | P03316 |
| B | Structural polyprotein (EC 3.4.21.-) | protein | 622 | 2% helix, 43% strand | P03316 |
| C | Structural polyprotein (EC 3.4.21.-) | protein | 622 | 2% helix, 43% strand | P03316 |
| D | Structural polyprotein (EC 3.4.21.-) | protein | 622 | 2% helix, 43% strand | P03316 |
| E | Structural polyprotein (EC 3.4.21.-) | protein | 623 | 2% helix, 44% strand | P03316 |
| F | Structural polyprotein (EC 3.4.21.-) | protein | 618 | 2% helix, 43% strand | P03316 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 24 copies · chains A, B, C, D, F, E
- MAN · alpha-D-mannopyranose · sugar · 14 copies · chains B, C, A, F, D
- BMA · beta-D-mannopyranose · sugar · 12 copies
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 19 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1052 | 0.82 | 0.83 | 105 | empty |
| 2 | 835 | 0.81 | 0.84 | 77 | empty |
| 3 | 850 | 0.81 | 0.84 | 86 | empty |
| 4 | 814 | 0.81 | 0.84 | 75 | empty |
| 5 | 827 | 0.81 | 0.83 | 85 | empty |
Interfaces
9 interfaces between chains.
- D–E · 887 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 868 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 857 Ų buried · 8 hydrogen bonds · protein-protein
- D–F · 855 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 853 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 72 disulfide, 60 modified, 12 glycan (disulfide, engineered, N-glycosylation).
Compared structures
- 3MUU · Crystal structure of the Sindbis virus E2-E1 heterodimer at low pH · 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 P03316
- Elsewhere: RCSB PDB 3MUU · PDBe 3MUU · UniProt P03316
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.