Barium in PDB 8qz4: Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76)

The structure of Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76), PDB code: 8qz4 was solved by K.E.J.Rodstrom, A.C.W.Pike, A.Baronina, J.Ang, S.R.Bushell, R.Chalk, S.M.M.Mukhopadhyay, E.Pardon, C.H.Arrowsmith, A.M.Edwards, C.Bountra, N.A.Burgess-Brown, S.J.Tucker, J.Steyaert, E.P.Carpenter, Structuralgenomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.11 / 3.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	68.28, 75.576, 259.15, 90, 90, 90
R / Rfree (%)	27 / 29.8

The binding sites of Barium atom in the Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76) (pdb code 8qz4). This binding sites where shown within 5.0 Angstroms radius around Barium atom.
In total 4 binding sites of Barium where determined in the Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76), PDB code: 8qz4:
Jump to Barium binding site number: 1; 2; 3; 4;

Barium binding site 1 out of 4 in the Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76)


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 1 of Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ba401 b:109.7 occ:1.00 O B:GLY283 2.6 54.5 1.0 O A:GLY174 2.7 49.2 1.0 O A:GLY283 2.8 59.8 1.0 O A:TYR175 2.8 49.5 1.0 O B:GLY174 2.8 48.9 1.0 O B:TYR175 2.8 50.9 1.0 O B:PHE284 3.1 56.1 1.0 O A:PHE284 3.3 61.2 1.0 C A:TYR175 3.4 49.4 1.0 C B:TYR175 3.4 50.7 1.0 C B:PHE284 3.6 55.9 1.0 C A:PHE284 3.7 61.0 1.0 C B:GLY283 3.8 54.1 1.0 C A:GLY174 3.8 49.0 1.0 CA A:TYR175 3.9 49.0 1.0 CA B:PHE284 3.9 54.8 1.0 CA B:TYR175 3.9 49.6 1.0 C B:GLY174 3.9 48.8 1.0 C A:GLY283 3.9 59.7 1.0 CA A:PHE284 4.1 60.3 1.0 N A:GLY176 4.2 49.7 1.0 N B:GLY176 4.3 51.3 1.0 N B:PHE284 4.3 54.2 1.0 N A:TYR175 4.3 48.8 1.0 N B:GLY285 4.4 56.4 1.0 N B:TYR175 4.4 49.0 1.0 N A:PHE284 4.5 59.7 1.0 N A:GLY285 4.5 61.1 1.0 CA A:GLY176 4.6 50.5 1.0 CA B:GLY176 4.7 52.2 1.0 O B:VAL282 4.8 52.3 1.0 O B:ILE173 4.8 47.2 1.0 O A:ILE173 4.8 48.8 1.0 O A:VAL282 4.9 59.2 1.0 CA B:GLY285 4.9 57.5 1.0 CA A:GLY285 4.9 61.9 1.0

Barium binding site 2 out of 4 in the Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76)


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 2 of Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ba402 b:50.0 occ:1.00 O A:VAL282 2.7 59.2 1.0 O A:ILE173 2.7 48.8 1.0 O B:VAL282 2.7 52.3 1.0 O A:THR281 2.7 59.2 1.0 O B:ILE173 2.8 47.2 1.0 O B:THR281 2.8 51.5 1.0 O B:THR172 2.8 47.2 1.0 O A:THR172 2.8 49.0 1.0 C A:VAL282 3.4 59.0 1.0 C A:ILE173 3.5 48.8 1.0 C B:VAL282 3.5 52.1 1.0 C B:ILE173 3.5 47.2 1.0 C A:THR281 3.8 58.8 1.0 C B:THR281 3.9 51.1 1.0 C A:THR172 3.9 49.0 1.0 C B:THR172 3.9 47.2 1.0 CA A:VAL282 4.0 58.5 1.0 CA A:ILE173 4.0 48.6 1.0 CA B:VAL282 4.0 51.5 1.0 CA B:ILE173 4.0 46.9 1.0 N A:GLY283 4.3 58.9 1.0 N A:VAL282 4.4 58.3 1.0 N B:VAL282 4.4 51.0 1.0 N B:GLY283 4.4 52.3 1.0 N A:ILE173 4.4 48.5 1.0 N A:GLY174 4.4 48.7 1.0 N B:ILE173 4.4 46.9 1.0 N B:GLY174 4.5 47.5 1.0 O A:GLY174 4.5 49.2 1.0 O B:GLY174 4.6 48.9 1.0 O A:GLY283 4.6 59.8 1.0 O B:GLY283 4.6 54.5 1.0 CA A:GLY283 4.8 59.3 1.0 CA B:GLY283 4.8 53.2 1.0 CA A:GLY174 4.9 49.1 1.0 CA B:GLY174 4.9 48.3 1.0

Barium binding site 3 out of 4 in the Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76)


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 3 of Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ba401 b:106.1 occ:1.00 ND2 B:ASN141 4.6 63.8 1.0 OD2 B:ASP140 5.0 63.6 1.0

Barium binding site 4 out of 4 in the Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76)


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 4 of Crystal Structure of Human Two Pore Domain Potassium Ion Channel Trek- 2 (K2P10.1) in Complex with An Activatory Nanobody (NB76) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ba402 b:151.5 occ:1.00 O B:LYS229 3.1 105.7 1.0 OE1 B:GLN230 3.3 116.8 1.0 C B:LYS229 3.9 105.6 1.0 CB B:GLN230 3.9 107.1 1.0 CD B:GLN230 4.3 115.3 1.0 N B:GLN230 4.5 105.4 1.0 CA B:GLN230 4.6 105.4 1.0 CG B:GLN230 4.7 110.9 1.0 CA B:LYS229 4.7 105.4 1.0 C B:GLN230 4.9 104.7 1.0 O B:GLN230 4.9 104.8 1.0

K.E.J.Rodstrom, A.Cloake, J.Sormann, A.Baronina, K.H.M.Smith, A.C.W.Pike, J.Ang, P.Proks, M.Schewe, I.Holland-Kaye, S.R.Bushell, J.Elliott, E.Pardon, T.Baukrowitz, R.J.Owens, S.Newstead, J.Steyaert, E.P.Carpenter, S.J.Tucker. Extracellular Modulation of Trek-2 Activity with Nanobodies Provides Insight Into the Mechanisms of K2P Channel Regulation. Nat Commun V. 15 4173 2024.
ISSN: ESSN 2041-1723
PubMed: 38755204
DOI: 10.1038/S41467-024-48536-2