Research workbench
Structure of HPV16 E6 oncoprotein in complex with mutant IRF3 lxxll motif
Analyse Structure of HPV16 E6 oncoprotein in complex with mutant IRF3 lxxll motif in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6SIV
- Type
- protein
- Length
- 519 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MALTOSE/MALTODEXTRIN-binding periplasmic PROTEIN,INTERFERON regulatory factor 3; Protein…
- UniProt
- P0AEX9, Q14653, P03126
- Ligands
- GLC, ZN
- Pockets
- 7 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MALTOSE/MALTODEXTRIN-binding periplasmic PROTEIN,INTERFERON regulatory factor 3 | protein | 383 | 46% helix, 20% strand | P0AEX9, Q14653 |
| B | Protein E6 | protein | 136 | 39% helix, 17% strand | P03126 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 5 copies · chains A
- ZN · Zinc ion · metal · 2 copies · chains 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 386 | 0.72 | 0.83 | 34 | GLC |
| 2 | 432 | 0.65 | 0.78 | 41 | empty |
| 3 | 135 | 0.54 | 0.81 | 30 | empty |
| 4 | 97 | 0.48 | 0.81 | 21 | empty |
| 5 | 75 | 0.44 | 0.80 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1133 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 6SIV · Structure of HPV16 E6 oncoprotein in complex with mutant IRF3 LxxLL motif · the same entry in another collection · chain A against A, TM-score 1.00
- Q14653 · AlphaFold monomer V2.0 prediction for interferon regulatory factor 3 (Q14653) · a predicted model of the same protein · chain A against A, TM-score 0.26
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 P0AEX9
- Every structure of UniProt Q14653
- Every structure of UniProt P03126
- Elsewhere: RCSB PDB 6SIV · PDBe 6SIV · UniProt P0AEX9 · UniProt Q14653 · UniProt P03126
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