MolNFT v1 · #189831 · protein
Coxsackievirus B3 at PH5.5 (VP3-234Q) incubation with coxsackievirus and adenovirus receptor for 20MIN
7VYL · Capsid protein VP1: “Coxsackievirus B3 at PH5.5 (VP3-234Q) incubation with coxsackievirus and adenovirus receptor for 20MIN”. Electron microscopy, 11 pockets (best druggability 0.80). MolNFT v1 #189831 on GenesisL1: 3D structure…
- PDB
- 7VYL
- Type
- protein
- Length
- 899 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein VP1; Capsid protein VP2; Capsid protein VP3; Capsid protein VP4…
- UniProt
- P03313, P78310
- Pockets
- 11 · best druggability 0.80
Structure
electron microscopy · 5 distinct chains · 9% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein VP1 | protein | 269 | 9% helix, 32% strand | P03313 |
| B | Capsid protein VP2 | protein | 256 | 13% helix, 37% strand | P03313 |
| C | Capsid protein VP3 | protein | 238 | 10% helix, 32% strand | P03313 |
| D | Capsid protein VP4 | protein | 57 | 0% helix, 16% strand | P03313 |
| E | Coxsackievirus and adenovirus receptor | protein | 79 | 4% helix, 49% strand | P78310 |
Pockets
11 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 706 | 0.80 | 0.84 | 70 | empty |
| 2 | 214 | 0.53 | 0.77 | 37 | empty |
| 3 | 97 | 0.50 | 0.82 | 23 | empty |
| 4 | 147 | 0.48 | 0.77 | 21 | empty |
| 5 | 61 | 0.45 | 0.83 | 21 | empty |
Interfaces
8 interfaces between chains.
- A–C · 4376 Ų buried · 61 hydrogen bonds · protein-protein
- A–B · 2192 Ų buried · 25 hydrogen bonds · protein-protein
- B–C · 1603 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 1145 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 925 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7VYL · Coxsackievirus B3 at pH5.5 (VP3-234Q) incubation with coxsackievirus and adenovirus… · the same entry in another collection · chain A against A, TM-score 1.00
- P78310 · AlphaFold monomer V2.0 prediction for coxsackievirus and adenovirus receptor (P78310) · a predicted model of the same protein · chain E against A, TM-score 0.95
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 P03313
- Every structure of UniProt P78310
- Elsewhere: RCSB PDB 7VYL · PDBe 7VYL · UniProt P03313 · UniProt P78310
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