MolNFT v2 · #164421 · protein
Atomic structure of the Epstein-Barr portal, structure II
6RVS · Portal protein: “Atomic structure of the Epstein-Barr portal, structure II”. Electron microscopy at 3.59, 20 pockets (best druggability 0.81). MolNFT v2 #164421 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6RVS
- Type
- protein
- Length
- 4,764 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.59
- Source
- Epstein-Barr virus (strain GD1)
- Molecule
- Portal protein
- UniProt
- A0A0B6VPI0
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · resolution 3.59 · 1 distinct chain · 50% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Portal protein | protein | 397 | 50% helix, 13% strand | A0A0B6VPI0 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 927 | 0.81 | 0.83 | 83 | empty |
| 2 | 937 | 0.81 | 0.83 | 83 | empty |
| 3 | 895 | 0.81 | 0.83 | 81 | empty |
| 4 | 921 | 0.81 | 0.83 | 83 | empty |
| 5 | 870 | 0.81 | 0.83 | 76 | empty |
Interfaces
24 interfaces between chains.
- H–I · 3994 Ų buried · 27 hydrogen bonds · protein-protein
- G–H · 3993 Ų buried · 27 hydrogen bonds · protein-protein
- I–J · 3987 Ų buried · 27 hydrogen bonds · protein-protein
- D–E · 3986 Ų buried · 27 hydrogen bonds · protein-protein
- F–G · 3985 Ų buried · 27 hydrogen bonds · protein-protein
Compared structures
- 6RVS · Atomic structure of the epstein-barr portal, structure II · 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 A0A0B6VPI0
- Elsewhere: RCSB PDB 6RVS · PDBe 6RVS · UniProt A0A0B6VPI0
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