Research workbench
Human Kv4.2-KChIP2-DPP6 channel complex in an open state, intracellular region
Analyse Human Kv4.2-KChIP2-DPP6 channel complex in an open state, intracellular region in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7UKH
- Type
- protein
- Length
- 1,536 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.33
- Source
- Homo sapiens
- Molecule
- Potassium voltage-gated channel subfamily D member 2; Isoform 2 of Kv channel-interacting…
- UniProt
- Q9NZV8, Q9NS61
- Ligands
- CA, ZN
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · resolution 2.33 · 2 distinct chains · 60% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Potassium voltage-gated channel subfamily D member 2 | protein | 203 | 56% helix, 9% strand | Q9NZV8 |
| I, J, K, L | Isoform 2 of Kv channel-interacting protein 2 | protein | 181 | 64% helix, 6% strand | Q9NS61 |
Ligands and binding sites
- CA · Calcium ion · metal · 12 copies · chains I, J, K, L
- ZN · Zinc ion · metal · 4 copies · chains A, B, C, 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, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 552 | 0.80 | 0.86 | 39 | empty |
| 2 | 1063 | 0.75 | 0.78 | 98 | empty |
| 3 | 987 | 0.75 | 0.78 | 96 | empty |
| 4 | 1111 | 0.74 | 0.77 | 106 | empty |
| 5 | 1078 | 0.74 | 0.77 | 114 | empty |
Interfaces
12 interfaces between chains.
- A–D · 1778 Ų buried · 27 hydrogen bonds · protein-protein
- B–C · 1777 Ų buried · 28 hydrogen bonds · protein-protein
- C–D · 1772 Ų buried · 28 hydrogen bonds · protein-protein
- A–B · 1764 Ų buried · 24 hydrogen bonds · protein-protein
- D–L · 1597 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 7UKH · Human KV4.2-KCHIP2-DPP6 channel complex in an open state, intracellular region · the same entry in another collection · chain L against L, TM-score 1.00
- Q9NS61 · AlphaFold monomer V2.0 prediction for kv channel-interacting protein 2 (Q9NS61) · a predicted model of the same protein · chain L against A, TM-score 0.90
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 Q9NZV8
- Every structure of UniProt Q9NS61
- Elsewhere: RCSB PDB 7UKH · PDBe 7UKH · UniProt Q9NZV8 · UniProt Q9NS61
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