MolNFT v1 · #48568 · protein
Crystal structure of the murray valley encephalitis virus NS5 2'-O methyltransferase domain in complex with sah and gtpg
2PXA · Genome polyprotein [contains: capsid protein C (core…: “Crystal structure of the murray valley encephalitis virus NS5 2'-O methyltransferase domain in complex with…”. X-ray diffraction, 2 ligands (GTP, SAH), 7 pockets (best…
- PDB
- 2PXA
- Type
- protein
- Length
- 524 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Genome polyprotein [contains: capsid protein C (core protein)
- EC
- 2.7.7.48
- UniProt
- P05769
- Ligands
- GTP, SAH
- Pockets
- 7 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Genome polyprotein [contains: capsid protein C (core protein) (EC 2.7.7.48) | protein | 262 | 35% helix, 15% strand | P05769 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · 2 copies · chains A, B
- SAH · S-adenosyl-L-homocysteine · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 688 | 0.71 | 0.78 | 68 | GTP, SAH |
| 2 | 513 | 0.68 | 0.79 | 60 | GTP, SAH |
| 3 | 59 | 0.39 | 0.80 | 17 | empty |
| 4 | 81 | 0.38 | 0.77 | 20 | empty |
| 5 | 104 | 0.37 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 488 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 2PXA · Crystal structure of the Murray Valley Encephalitis Virus NS5 2'-O Methyltransferase… · 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 P05769
- Elsewhere: RCSB PDB 2PXA · PDBe 2PXA · UniProt P05769
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.