Research workbench
Crystal structure of the poliovirus precursor protein 3CD
Analyse Crystal structure of the poliovirus precursor protein 3CD in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2IJD
- Type
- protein
- Length
- 1,288 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Picornain 3C, RNA-directed RNA polymerase
- EC
- 3.4.22.28, 2.7.7.48
- UniProt
- P03300
- Ligands
- ZN, SO4
- Pockets
- 6 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 1, 2 | Picornain 3C, RNA-directed RNA polymerase (EC 3.4.22.28, 2.7.7.48) | protein | 644 | 33% helix, 24% strand | P03300 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1132 | 0.73 | 0.76 | 123 | SO4 |
| 2 | 1160 | 0.71 | 0.75 | 106 | SO4 |
| 3 | 694 | 0.65 | 0.74 | 65 | empty |
| 4 | 94 | 0.32 | 0.73 | 16 | empty |
| 5 | 71 | 0.32 | 0.74 | 11 | empty |
Interfaces
1 interface between chains.
- 1–2 · 644 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 2IJD · Crystal Structure of the Poliovirus Precursor Protein 3CD · the same entry in another collection · chain 1 against 1, 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 P03300
- Elsewhere: RCSB PDB 2IJD · PDBe 2IJD · UniProt P03300
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