Research workbench
Crystal structure of full-length HPV31 E6 oncoprotein in complex with lxxll peptide of ubiquitin ligase E6AP
Analyse Crystal structure of full-length HPV31 E6 oncoprotein in complex with lxxll… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6SLM
- Type
- protein
- Length
- 539 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MALTOSE/MALTODEXTRIN-binding periplasmic PROTEIN,PROTEIN E6,UBIQUITIN-protein ligase E3A
- EC
- 2.3.2.26
- UniProt
- P0AEX9, P17386, Q05086
- Ligands
- GLC, ZN
- Pockets
- 6 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MALTOSE/MALTODEXTRIN-binding periplasmic PROTEIN,PROTEIN E6,UBIQUITIN-protein ligase E3A (EC 2.3.2.26) | protein | 539 | 40% helix, 19% strand | P0AEX9, P17386, Q05086 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A
- ZN · Zinc ion · metal · 2 copies · chains A
- GOL · Glycerol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 370 | 0.70 | 0.83 | 35 | empty |
| 2 | 262 | 0.70 | 0.85 | 28 | GLC |
| 3 | 132 | 0.42 | 0.75 | 25 | empty |
| 4 | 51 | 0.38 | 0.80 | 16 | GOL |
| 5 | 78 | 0.35 | 0.75 | 14 | empty |
Compared structures
- 6SLM · Crystal structure of full-length HPV31 E6 oncoprotein in complex with LXXLL peptide of… · the same entry in another collection · chain A against A, TM-score 1.00
- Q05086 · AlphaFold monomer V2.0 prediction for ubiquitin-protein ligase E3A (Q05086) · a predicted model of the same protein · chain A against A, TM-score 0.28
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 P17386
- Every structure of UniProt Q05086
- Elsewhere: RCSB PDB 6SLM · PDBe 6SLM · UniProt P0AEX9 · UniProt P17386 · UniProt Q05086
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