Research workbench

K2P2.1 (trek-1), 10 mm K+

Analyse K2P2.1 (trek-1), 10 mm K+ in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6W7D
Type: protein
Length: 525 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Potassium channel subfamily K member 2
UniProt: P97438
Ligands: D12, LNK, R16, CD, K
Pockets: 14 · best druggability 0.67

Structure

x-ray diffraction · 2 distinct chains · 77% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Potassium channel subfamily K member 2	protein	251	78% helix, 0% strand	P97438
B	Potassium channel subfamily K member 2	protein	274	75% helix, 0% strand	P97438

Ligands and binding sites

D12 · Dodecane · ligand · 3 copies · chains A, B
LNK · Pentane · ligand · 2 copies · chains B
R16 · Hexadecane · ligand · chains A, B
CD · Cadmium ion · metal · 3 copies · chains B
K · Potassium ion · metal · 2 copies · chains A, B
OCT · N-octane · additive · 5 copies · chains A, B
1PE · Pentaethylene glycol · additive

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

14 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	570	0.67	0.77	38	empty
2	212	0.66	0.84	41	empty
3	369	0.65	0.79	46	empty
4	150	0.57	0.82	25	empty
5	140	0.53	0.80	22	empty

Interfaces

1 interface between chains.

A–B · 4886 Å² buried · 42 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

6W7D · K2P2.1 (TREK-1), 10 mM K+ · the same entry in another collection · chain A against A, TM-score 1.00
P97438 · AlphaFold monomer V2.0 prediction for potassium channel subfamily K member 2 (P97438) · a predicted model of the same protein · chain B against A, TM-score 0.94

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 P97438
Elsewhere: RCSB PDB 6W7D · PDBe 6W7D · UniProt P97438

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