Research workbench
Echo 18 incubated with fcrn at PH5.5
Analyse Echo 18 incubated with fcrn at PH5.5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7XXJ
- Type
- protein
- Length
- 798 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- VP1; VP2; VP3; VP4
- Ligands
- PLM
- Pockets
- 5 · best druggability 0.77
Structure
electron microscopy · 4 distinct chains · 9% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | VP1 | protein | 269 | 10% helix, 28% strand | — |
| B | VP2 | protein | 250 | 10% helix, 36% strand | — |
| C | VP3 | protein | 238 | 8% helix, 26% strand | — |
| D | VP4 | protein | 41 | 7% helix, 2% strand | — |
Ligands and binding sites
- PLM · Palmitic acid · ligand · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.77 | 0.96 | 27 | PLM |
| 2 | 99 | 0.34 | 0.73 | 18 | empty |
| 3 | 58 | 0.32 | 0.76 | 17 | empty |
| 4 | 70 | 0.32 | 0.75 | 14 | empty |
| 5 | 65 | 0.31 | 0.75 | 19 | empty |
Interfaces
6 interfaces between chains.
- A–C · 4352 Ų buried · 92 hydrogen bonds · protein-protein
- A–B · 2038 Ų buried · 39 hydrogen bonds · protein-protein
- B–C · 1719 Ų buried · 28 hydrogen bonds · protein-protein
- A–D · 1197 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 1033 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 7XXJ · Echo 18 incubated with FcRn at pH5.5 · 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
- Elsewhere: RCSB PDB 7XXJ · PDBe 7XXJ
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.