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Cryo-EM structure of the G protein-gated inward rectifier K+ channel GIRK2 (KIR3.2) in complex with PIP2
Analyse Cryo-EM 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
- 6XIT
- Type
- protein
- Length
- 1,308 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- G protein-activated inward rectifier potassium channel 2
- UniProt
- A0A338P6L0
- Ligands
- PIO, K
- Pockets
- 15 · best druggability 0.87
Structure
electron microscopy · 1 distinct chain · 31% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | G protein-activated inward rectifier potassium channel 2 | protein | 327 | 31% helix, 28% strand | A0A338P6L0 |
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 · 4 copies · chains A, B, C, D
- K · Potassium ion · metal · 3 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1175 | 0.87 | 0.88 | 88 | empty |
| 2 | 900 | 0.84 | 0.86 | 55 | empty |
| 3 | 440 | 0.69 | 0.81 | 60 | empty |
| 4 | 435 | 0.69 | 0.81 | 55 | empty |
| 5 | 445 | 0.69 | 0.80 | 54 | empty |
Interfaces
6 interfaces between chains.
- A–B · 3525 Ų buried · 46 hydrogen bonds · protein-protein
- C–D · 3519 Ų buried · 47 hydrogen bonds · protein-protein
- B–D · 3516 Ų buried · 46 hydrogen bonds · protein-protein
- A–C · 3501 Ų buried · 45 hydrogen bonds · protein-protein
- A–D · 38 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6XIT · Cryo-EM structure of the G protein-gated inward rectifier K+ channel GIRK2 (Kir3.2) in… · 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 A0A338P6L0
- Elsewhere: RCSB PDB 6XIT · PDBe 6XIT · UniProt A0A338P6L0
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