Research workbench
Cryo-EM structure of hepatitis B virus T=3 capsid in complex with the fluorescent allosteric modulator hap-tamra
Analyse Cryo-EM structure of hepatitis B virus T=3 capsid in complex with the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6BVN
- Type
- protein
- Length
- 432 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein
- UniProt
- P03147
- Ligands
- E9D
- Pockets
- 3 · best druggability 0.71
Structure
electron microscopy · 1 distinct chain · 68% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, B, A | Capsid protein | protein | 144 | 68% helix, 0% strand | P03147 |
Ligands and binding sites
- E9D · Heteroaryldihydropyrimidine tetramethylrodamine · ligand · chains C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 348 | 0.71 | 0.83 | 34 | E9D |
| 2 | 256 | 0.66 | 0.83 | 37 | empty |
| 3 | 62 | 0.35 | 0.77 | 16 | empty |
Interfaces
3 interfaces between chains.
- B–A · 1966 Ų buried · 13 hydrogen bonds · protein-protein
- C–B · 510 Ų buried · 2 hydrogen bonds · protein-protein
- C–A · 16 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6BVN · Cryo-EM Structure of Hepatitis B virus T=3 capsid in complex with the fluorescent… · the same entry in another collection · chain C against C, 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 P03147
- Elsewhere: RCSB PDB 6BVN · PDBe 6BVN · UniProt P03147
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.