Research workbench
Cryo-EM structure of seneca valley virus-anthrax toxin receptor 1 complex
Analyse Cryo-EM structure of seneca valley virus-anthrax toxin receptor 1 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6CX1
- Type
- protein
- Length
- 980 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Anthrax toxin receptor 1; Capsid protein VP1; Capsid protein VP2; Capsid protein VP3…
- UniProt
- Q9H6X2, A0A1U9IRU2, A0A218L148
- Pockets
- 16 · best druggability 0.79
Structure
electron microscopy · 5 distinct chains · 13% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Anthrax toxin receptor 1 | protein | 182 | 41% helix, 16% strand | Q9H6X2 |
| A | Capsid protein VP1 | protein | 258 | 7% helix, 28% strand | A0A1U9IRU2 |
| C | Capsid protein VP2 | protein | 268 | 7% helix, 30% strand | A0A1U9IRU2 |
| B | Capsid protein VP3 | protein | 238 | 8% helix, 28% strand | A0A1U9IRU2 |
| D | Capsid protein VP4 | protein | 34 | 12% helix, 3% strand | A0A218L148 |
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 880 | 0.79 | 0.82 | 103 | empty |
| 2 | 180 | 0.65 | 0.85 | 24 | empty |
| 3 | 270 | 0.63 | 0.80 | 26 | empty |
| 4 | 139 | 0.61 | 0.85 | 20 | empty |
| 5 | 114 | 0.58 | 0.85 | 16 | empty |
Interfaces
9 interfaces between chains.
- A–B · 3224 Ų buried · 26 hydrogen bonds · protein-protein
- A–C · 2707 Ų buried · 24 hydrogen bonds · protein-protein
- C–B · 1742 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 810 Ų buried · 3 hydrogen bonds · protein-protein
- E–C · 544 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 6CX1 · Cryo-EM structure of Seneca Valley Virus-Anthrax Toxin Receptor 1 complex · the same entry in another collection · chain E against E, TM-score 1.00
- Q9H6X2 · AlphaFold monomer V2.0 prediction for anthrax toxin receptor 1 (Q9H6X2) · a predicted model of the same protein · chain E against A, TM-score 0.90
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 Q9H6X2
- Every structure of UniProt A0A1U9IRU2
- Every structure of UniProt A0A218L148
- Elsewhere: RCSB PDB 6CX1 · PDBe 6CX1 · UniProt Q9H6X2 · UniProt A0A1U9IRU2 · UniProt A0A218L148
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