MolNFT v1 · #6335 · protein
Crystal structure of the HPV-18 E2 DNA-binding domain
1F9F · Regulatory protein E2: “Crystal structure of the HPV-18 E2 DNA-binding domain”. X-ray diffraction, 1 ligand (SO4), 1 pocket (best druggability 0.51). MolNFT v1 #6335 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1F9F
- Type
- protein
- Length
- 311 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Regulatory protein E2
- UniProt
- P06790
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.51
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Regulatory protein E2 | protein | 76 | 32% helix, 38% strand | P06790 |
| B | Regulatory protein E2 | protein | 77 | 31% helix, 38% strand | P06790 |
| C | Regulatory protein E2 | protein | 76 | 32% helix, 37% strand | P06790 |
| D | Regulatory protein E2 | protein | 82 | 29% helix, 34% strand | P06790 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 199 | 0.51 | 0.77 | 35 | empty |
Interfaces
3 interfaces between chains.
- C–D · 979 Ų buried · 26 hydrogen bonds · protein-protein
- A–B · 813 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 266 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 1F9F · Crystal structure of the HPV-18 E2 DNA-binding 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 P06790
- Elsewhere: RCSB PDB 1F9F · PDBe 1F9F · UniProt P06790
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