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2.0A crystal structure of lymphocytic choriomeningitis virus nucleoprotein C-terminal domain
Analyse 2.0A crystal structure of lymphocytic choriomeningitis virus nucleoprotein… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4O6I
- Type
- protein
- Length
- 406 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoprotein
- UniProt
- P09992
- Ligands
- ZN, MG
- Pockets
- 5 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleoprotein | protein | 202 | 39% helix, 18% strand | P09992 |
| B | Nucleoprotein | protein | 204 | 38% helix, 17% strand | P09992 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
- IMD · Imidazole · additive · 10 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 295 | 0.56 | 0.76 | 41 | empty |
| 2 | 233 | 0.53 | 0.77 | 40 | empty |
| 3 | 156 | 0.42 | 0.74 | 20 | MG |
| 4 | 127 | 0.39 | 0.74 | 20 | empty |
| 5 | 63 | 0.29 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 951 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 4O6I · 2.0A crystal structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-terminal… · the same entry in another collection · chain B against B, 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 P09992
- Elsewhere: RCSB PDB 4O6I · PDBe 4O6I · UniProt P09992
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