MolNFT v1 · #155610 · protein
Zika NS5 polymerase domain
6LD1 · RNA-directed RNA polymerase NS5: “Zika NS5 polymerase domain”. X-ray diffraction, 1 ligand (ZN), 2 pockets (best druggability 0.73). MolNFT v1 #155610 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6LD1
- Type
- protein
- Length
- 574 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-directed RNA polymerase NS5
- EC
- 2.1.1.56, 2.1.1.57, 2.7.7.48
- UniProt
- A0A024B7W1
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA-directed RNA polymerase NS5 (EC 2.1.1.56, 2.1.1.57, 2.7.7.48) | protein | 574 | 49% helix, 11% strand | A0A024B7W1 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1104 | 0.73 | 0.77 | 90 | empty |
| 2 | 96 | 0.39 | 0.76 | 16 | empty |
Compared structures
- 6LD1 · Zika NS5 polymerase domain · 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 A0A024B7W1
- Elsewhere: RCSB PDB 6LD1 · PDBe 6LD1 · UniProt A0A024B7W1
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