Gadolinium in PDB 3h9v: Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms

The structure of Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms, PDB code: 3h9v was solved by T.Kawate, J.C.Michel, E.Gouaux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.11 / 3.10
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	100.836, 100.836, 431.316, 90.00, 90.00, 120.00
R / Rfree (%)	24.8 / 27.8

The binding sites of Gadolinium atom in the Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms (pdb code 3h9v). This binding sites where shown within 5.0 Angstroms radius around Gadolinium atom.
In total 2 binding sites of Gadolinium where determined in the Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms, PDB code: 3h9v:
Jump to Gadolinium binding site number: 1; 2;

Gadolinium binding site 1 out of 2 in the Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 1 of Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms within 5.0Å range: probe atom residue distance (Å) B Occ A:Gd382 b:0.5 occ:0.76 OE1 A:GLU186 3.4 76.0 1.0 CG A:GLN247 3.8 79.7 1.0 OE2 A:GLU186 3.8 77.0 1.0 CD A:GLU186 4.1 80.2 1.0 OD1 A:ASP245 4.4 86.5 1.0 CB A:GLN247 4.5 70.0 1.0 OD2 A:ASP245 4.5 78.2 1.0 CG A:ASP245 4.9 76.9 1.0

Gadolinium binding site 2 out of 2 in the Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 2 of Crystal Structure of the Atp-Gated P2X4 Ion Channel in the Closed, Apo State at 3.1 Angstroms within 5.0Å range: probe atom residue distance (Å) B Occ A:Gd383 b:0.6 occ:0.50 OD1 A:ASP99 2.8 0.1 1.0 OD2 A:ASP99 2.9 0.1 1.0 CG A:ASP99 2.9 0.2 1.0 OE2 A:GLU98 3.0 0.5 1.0 CD A:GLU98 3.4 0.8 1.0 OE1 A:GLU98 3.7 0.3 1.0 CB A:ASP99 4.0 0.8 1.0 CG A:GLU98 4.1 98.6 1.0 N A:ASP99 4.6 0.5 1.0 CA A:ASP99 4.9 0.3 1.0

T.Kawate, J.C.Michel, W.T.Birdsong, E.Gouaux. Crystal Structure of the Atp-Gated P2X(4) Ion Channel in the Closed State. Nature V. 460 592 2009.
ISSN: ISSN 0028-0836
PubMed: 19641588
DOI: 10.1038/NATURE08198