MolNFT v1 · #167843 · protein
Bestrophin-2 CA2+- unbound state (250 nm CA2+)
6VX5: “Bestrophin-2 CA2+- unbound state (250 nm CA2+)”. Electron microscopy, 1 ligand (CL), 20 pockets (best druggability 0.79). MolNFT v1 #167843 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6VX5
- Type
- protein
- Length
- 1,575 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bestrophin
- UniProt
- E1BF86
- Ligands
- CL
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 1 distinct chain · 64% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E, C, B, A, D | Bestrophin | protein | 315 | 64% helix, 1% strand | E1BF86 |
Ligands and binding sites
- CL · Chloride ion · ion · chains E, C, B, A, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 834 | 0.79 | 0.81 | 68 | empty |
| 2 | 591 | 0.71 | 0.79 | 71 | CL |
| 3 | 368 | 0.65 | 0.79 | 49 | empty |
| 4 | 693 | 0.64 | 0.74 | 73 | empty |
| 5 | 196 | 0.56 | 0.79 | 28 | empty |
Interfaces
10 interfaces between chains.
- E–A · 3749 Ų buried · 22 hydrogen bonds · protein-protein
- C–B · 3724 Ų buried · 23 hydrogen bonds · protein-protein
- B–A · 3719 Ų buried · 22 hydrogen bonds · protein-protein
- C–D · 3714 Ų buried · 22 hydrogen bonds · protein-protein
- E–D · 3689 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 6VX5 · bestrophin-2 Ca2+- unbound state (250 nM Ca2+) · the same entry in another collection · chain D against D, 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 E1BF86
- Elsewhere: RCSB PDB 6VX5 · PDBe 6VX5 · UniProt E1BF86
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