MolNFT v1 · #126136 · protein
Crystal structure of lymphocytic choriomeningitis mammarenavirus endonuclease mutant D118A
5LTS · RNA-directed RNA polymerase L: “Crystal structure of lymphocytic choriomeningitis mammarenavirus endonuclease mutant D118A”. X-ray diffraction, 2 ligands (NA, CL), 2 pockets (best druggability 0.42). MolNFT v1 #126136 on GenesisL1…
- PDB
- 5LTS
- Type
- protein
- Length
- 381 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-directed RNA polymerase L
- EC
- 2.7.7.48
- UniProt
- A0A059U382
- Ligands
- NA, CL
- Pockets
- 2 · best druggability 0.42
Structure
x-ray diffraction · 2 distinct chains · 57% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA-directed RNA polymerase L (EC 2.7.7.48) | protein | 189 | 57% helix, 13% strand | A0A059U382 |
| B | RNA-directed RNA polymerase L (EC 2.7.7.48) | protein | 192 | 57% helix, 13% strand | A0A059U382 |
Ligands and binding sites
- NA · Sodium ion · metal · chains B
- CL · Chloride ion · ion · chains B
- GOL · Glycerol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 147 | 0.42 | 0.75 | 16 | empty |
| 2 | 96 | 0.36 | 0.74 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 648 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 5LTS · Crystal structure of Lymphocytic choriomeningitis mammarenavirus endonuclease Mutant D118A · 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 A0A059U382
- Elsewhere: RCSB PDB 5LTS · PDBe 5LTS · UniProt A0A059U382
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