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Crystal structure of oligomerization domain of SARS coronavirus nucleocapsid protein.
Analyse Crystal structure of oligomerization domain of SARS coronavirus nucleocapsid… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2CJR
- Type
- protein
- Length
- 895 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleocapsid protein
- UniProt
- P59595
- Pockets
- 10 · best druggability 0.66
Structure
x-ray diffraction · 5 distinct chains · 37% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Nucleocapsid protein | protein | 115 | 37% helix, 16% strand | P59595 |
| B, C | Nucleocapsid protein | protein | 113 | 39% helix, 18% strand | P59595 |
| E, H | Nucleocapsid protein | protein | 110 | 36% helix, 15% strand | P59595 |
| F | Nucleocapsid protein | protein | 111 | 36% helix, 14% strand | P59595 |
| G | Nucleocapsid protein | protein | 108 | 39% helix, 17% strand | P59595 |
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 351 | 0.66 | 0.81 | 33 | empty |
| 2 | 133 | 0.66 | 0.88 | 20 | empty |
| 3 | 273 | 0.51 | 0.74 | 50 | empty |
| 4 | 161 | 0.45 | 0.75 | 20 | empty |
| 5 | 129 | 0.44 | 0.77 | 27 | empty |
Interfaces
11 interfaces between chains.
- E–F · 2712 Ų buried · 56 hydrogen bonds · protein-protein
- G–H · 2693 Ų buried · 46 hydrogen bonds · protein-protein
- C–D · 2673 Ų buried · 46 hydrogen bonds · protein-protein
- A–B · 2666 Ų buried · 43 hydrogen bonds · protein-protein
- B–C · 578 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 2CJR · Crystal structure of oligomerization domain of SARS coronavirus nucleocapsid protein. · the same entry in another collection · chain E against E, 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 P59595
- Elsewhere: RCSB PDB 2CJR · PDBe 2CJR · UniProt P59595
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