Research workbench
Crystal structure of a membrane protein P262A
Analyse Crystal structure of a membrane protein P262A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6IVP
- Type
- protein
- Length
- 1,348 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bestrophin
- UniProt
- W9BH30
- Ligands
- ZN, CL
- Pockets
- 17 · best druggability 0.84
Structure
x-ray diffraction · 4 distinct chains · 82% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bestrophin | protein | 273 | 81% helix, 1% strand | W9BH30 |
| B, E | Bestrophin | protein | 269 | 81% helix, 1% strand | W9BH30 |
| C | Bestrophin | protein | 269 | 83% helix, 0% strand | W9BH30 |
| D | Bestrophin | protein | 268 | 82% helix, 1% strand | W9BH30 |
Ligands and binding sites
- ZN · Zinc ion · metal · 14 copies · chains A, E, B, D, C
- CL · Chloride ion · ion · 10 copies · chains A, B, C, D, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1089 | 0.84 | 0.85 | 143 | empty |
| 2 | 703 | 0.72 | 0.79 | 51 | ZN |
| 3 | 240 | 0.55 | 0.78 | 41 | empty |
| 4 | 186 | 0.55 | 0.79 | 31 | empty |
| 5 | 145 | 0.54 | 0.81 | 21 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2697 Ų buried · 25 hydrogen bonds · protein-protein
- A–E · 2695 Ų buried · 25 hydrogen bonds · protein-protein
- B–D · 2663 Ų buried · 22 hydrogen bonds · protein-protein
- C–E · 2637 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 2632 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 6IVP · Crystal structure of a membrane protein P262A · 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 W9BH30
- Elsewhere: RCSB PDB 6IVP · PDBe 6IVP · UniProt W9BH30
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