Research workbench
Crystal structure of african swine fever virus A179L with the autophagy regulator beclin
Analyse Crystal structure of african swine fever virus A179L with the autophagy… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6TZC
- Type
- protein
- Length
- 531 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MALTOSE/MALTODEXTRIN-binding periplasmic protein; Apoptosis regulator BCL-2 homolog…
- UniProt
- P0AEX9, P42485, Q4A1L5
- Ligands
- GLC
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 56% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MALTOSE/MALTODEXTRIN-binding periplasmic protein | protein | 367 | 46% helix, 21% strand | P0AEX9 |
| B | Apoptosis regulator BCL-2 homolog | protein | 144 | 80% helix, 0% strand | P42485 |
| C | Beclin-1 | protein | 20 | 85% helix, 0% strand | Q4A1L5 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 290 | 0.72 | 0.85 | 29 | GLC |
| 2 | 215 | 0.61 | 0.82 | 27 | empty |
| 3 | 281 | 0.51 | 0.74 | 39 | empty |
| 4 | 79 | 0.34 | 0.75 | 21 | empty |
Interfaces
2 interfaces between chains.
- B–C · 910 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 316 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 6TZC · Crystal Structure of African Swine Fever Virus A179L with the Autophagy Regulator Beclin · the same entry in another collection · chain A against A, TM-score 1.00
- Q4A1L5 · AlphaFold monomer V2.0 prediction for beclin-1 (Q4A1L5) · a predicted model of the same protein · chain C against A, TM-score 0.76
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 P42485
- Every structure of UniProt Q4A1L5
- Elsewhere: RCSB PDB 6TZC · PDBe 6TZC · UniProt P0AEX9 · UniProt P42485 · UniProt Q4A1L5
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