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Crystal structure of the G protein-gated inward rectifier K+ channel GIRK2 (KIR3.2) R201A mutant in complex with PIP2
Analyse Crystal structure of the G protein-gated inward rectifier K+ channel GIRK2… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3SYQ
- Type
- protein
- Length
- 585 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- G protein-activated inward rectifier potassium channel 2
- UniProt
- P48542
- Ligands
- PIO, K
- Pockets
- 7 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 29% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | G protein-activated inward rectifier potassium channel 2 | protein | 292 | 28% helix, 28% strand | P48542 |
| B | G protein-activated inward rectifier potassium channel 2 | protein | 293 | 29% helix, 28% strand | P48542 |
Ligands and binding sites
- PIO · [(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2, 3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate · ligand · chains A
- K · Potassium ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 593 | 0.72 | 0.80 | 73 | empty |
| 2 | 284 | 0.56 | 0.77 | 51 | empty |
| 3 | 210 | 0.52 | 0.77 | 33 | empty |
| 4 | 180 | 0.45 | 0.74 | 25 | empty |
| 5 | 57 | 0.43 | 0.83 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 2474 Ų buried · 29 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3SYQ · Crystal structure of the G protein-gated inward rectifier K+ channel GIRK2 (Kir3.2) R201A… · the same entry in another collection · chain A against A, TM-score 1.00
- P48542 · AlphaFold monomer V2.0 prediction for G protein-activated inward rectifier potassium… · a predicted model of the same protein · chain B against A, TM-score 0.95
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 P48542
- Elsewhere: RCSB PDB 3SYQ · PDBe 3SYQ · UniProt P48542
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