Research workbench
Crystal structure of the authentic flock house virus particle
Analyse Crystal structure of the authentic flock house virus particle in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4FTB
- Type
- protein + RNA
- Length
- 1,016 residues
- Chains
- 7
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein beta; Capsid protein gamma; Flock house virus genomic RNA
- EC
- 3.4.23.44
- UniProt
- P12870
- Ligands
- CA, CL
- Pockets
- 8 · best druggability 0.85
Structure
x-ray diffraction · 7 distinct chains · 18% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capsid protein beta (EC 3.4.23.44) | protein | 321 | 15% helix, 38% strand | P12870 |
| D | Capsid protein gamma | protein | 21 | 62% helix, 0% strand | P12870 |
| B | Capsid protein beta (EC 3.4.23.44) | protein | 311 | 15% helix, 39% strand | P12870 |
| E | Capsid protein gamma | protein | 19 | 63% helix, 0% strand | P12870 |
| C | Capsid protein beta (EC 3.4.23.44) | protein | 309 | 16% helix, 39% strand | P12870 |
| F | Capsid protein gamma | protein | 20 | 75% helix, 0% strand | P12870 |
| R | Flock house virus genomic RNA | rna | 15 | — | — |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains A, C, B
- CL · Chloride ion · ion · chains B
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · 3 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1038 | 0.85 | 0.87 | 59 | empty |
| 2 | 255 | 0.81 | 0.93 | 29 | empty |
| 3 | 298 | 0.79 | 0.90 | 33 | empty |
| 4 | 272 | 0.75 | 0.88 | 28 | empty |
| 5 | 261 | 0.75 | 0.88 | 29 | empty |
Interfaces
11 interfaces between chains.
- A–B · 2089 Ų buried · 27 hydrogen bonds · protein-protein
- B–C · 1766 Ų buried · 25 hydrogen bonds · protein-protein
- A–C · 1762 Ų buried · 25 hydrogen bonds · protein-protein
- B–E · 790 Ų buried · 4 hydrogen bonds · protein-protein
- C–F · 740 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 4FTB · Crystal structure of the authentic Flock House virus particle · 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 P12870
- Elsewhere: RCSB PDB 4FTB · PDBe 4FTB · UniProt P12870
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.