Research workbench
X-ray structure and activities of an essential mononegavirales L- protein domain
Analyse X-ray structure and activities of an essential mononegavirales L- protein domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UCI
- Type
- protein
- Length
- 731 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-directed RNA polymerase L
- UniProt
- Q6WB93
- Ligands
- SAM, GTP, ADN, ZN
- Pockets
- 5 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA-directed RNA polymerase L | protein | 361 | 43% helix, 14% strand | Q6WB93 |
| B | RNA-directed RNA polymerase L | protein | 370 | 42% helix, 14% strand | Q6WB93 |
Ligands and binding sites
- SAM · S-adenosylmethionine · ligand · 2 copies · chains A, B
- GTP · Guanosine-5'-triphosphate · ligand · 2 copies · chains A, B
- ADN · Adenosine · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · 2 copies · chains A, B
- GOL · Glycerol · additive · 7 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 607 | 0.67 | 0.77 | 68 | SAM, GTP, GOL |
| 2 | 462 | 0.65 | 0.78 | 47 | SAM, GTP |
| 3 | 386 | 0.57 | 0.75 | 44 | empty |
| 4 | 52 | 0.41 | 0.82 | 9 | ADN |
| 5 | 52 | 0.30 | 0.77 | 15 | GOL |
Interfaces
1 interface between chains.
- A–B · 655 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 4UCI · X-ray structure and activities of an essential Mo gavirales L- protein domain · 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 Q6WB93
- Elsewhere: RCSB PDB 4UCI · PDBe 4UCI · UniProt Q6WB93
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.