Research workbench
Structure of the C-terminal dimerization domain of infectious bronchitis virus nucleocapsid protein
Analyse Structure of the C-terminal dimerization domain of infectious bronchitis virus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GE8
- Type
- protein
- Length
- 875 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleocapsid protein
- UniProt
- P32923
- Pockets
- 5 · best druggability 0.77
Structure
x-ray diffraction · 7 distinct chains · 36% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleocapsid protein | protein | 112 | 32% helix, 20% strand | P32923 |
| B, C | Nucleocapsid protein | protein | 109 | 37% helix, 20% strand | P32923 |
| F | Nucleocapsid protein | protein | 106 | 37% helix, 21% strand | P32923 |
| G | Nucleocapsid protein | protein | 113 | 40% helix, 19% strand | P32923 |
| D | Nucleocapsid protein | protein | 111 | 40% helix, 20% strand | P32923 |
| I | Nucleocapsid protein | protein | 107 | 35% helix, 21% strand | P32923 |
| J | Nucleocapsid protein | protein | 108 | 33% helix, 20% strand | P32923 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1128 | 0.77 | 0.79 | 126 | empty |
| 2 | 93 | 0.58 | 0.87 | 18 | empty |
| 3 | 95 | 0.43 | 0.78 | 21 | empty |
| 4 | 50 | 0.28 | 0.75 | 17 | empty |
| 5 | 54 | 0.26 | 0.73 | 14 | empty |
Interfaces
16 interfaces between chains.
- A–B · 2992 Ų buried · 56 hydrogen bonds · protein-protein
- C–D · 2969 Ų buried · 51 hydrogen bonds · protein-protein
- F–G · 2963 Ų buried · 57 hydrogen bonds · protein-protein
- I–J · 2853 Ų buried · 52 hydrogen bonds · protein-protein
- B–D · 627 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 2GE8 · Structure of the C-terminal dimerization domain of infectious bronchitis virus… · 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 P32923
- Elsewhere: RCSB PDB 2GE8 · PDBe 2GE8 · UniProt P32923
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.