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Structure of 2A protein from encephalomyocarditis virus (emcv)
Analyse Structure of 2A protein from encephalomyocarditis virus (emcv) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7BNY
- Type
- protein
- Length
- 524 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Genome polyprotein
- EC
- 3.6.4.13, 3.4.22.28, 2.7.7.48
- UniProt
- P12296
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.48
Structure
x-ray diffraction · 3 distinct chains · 16% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Genome polyprotein (EC 3.6.4.13, 3.4.22.28, 2.7.7.48) | protein | 132 | 16% helix, 38% strand | P12296 |
| B | Genome polyprotein (EC 3.6.4.13, 3.4.22.28, 2.7.7.48) | protein | 140 | 15% helix, 37% strand | P12296 |
| C, D | Genome polyprotein (EC 3.6.4.13, 3.4.22.28, 2.7.7.48) | protein | 126 | 17% helix, 40% strand | P12296 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 9 copies · chains A, D, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 99 | 0.48 | 0.80 | 16 | empty |
| 2 | 68 | 0.41 | 0.80 | 24 | empty |
| 3 | 138 | 0.37 | 0.73 | 18 | empty |
| 4 | 125 | 0.36 | 0.73 | 19 | empty |
| 5 | 57 | 0.28 | 0.74 | 14 | empty |
Interfaces
5 interfaces between chains.
- A–D · 753 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 717 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 676 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 323 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 79 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7BNY · Structure of 2A protein from encephalomyocarditis virus (EMCV) · 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 P12296
- Elsewhere: RCSB PDB 7BNY · PDBe 7BNY · UniProt P12296
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