Zinc in PDB 2xq8: Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+)

The structure of Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+), PDB code: 2xq8 was solved by R.J.C.Hilf, C.Bertozzi, I.Zimmermann, A.Reiter, D.Trauner, R.Dutzler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.20 / 3.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	183.314, 128.310, 164.374, 90.00, 104.04, 90.00
R / Rfree (%)	23.8 / 24.9

The binding sites of Zinc atom in the Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+) (pdb code 2xq8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+), PDB code: 2xq8:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1317 b:0.5 occ:1.00 OD2 C:ASP177 2.8 0.1 1.0 CG C:ASP177 4.0 0.9 1.0 CB B:LEU145 4.0 0.2 1.0 CD1 B:LEU145 4.2 0.1 1.0 OE1 B:GLU146 4.3 0.8 1.0 CG B:LEU145 4.6 0.2 1.0 N C:ASP177 4.6 0.6 1.0 CB C:ASP177 4.7 0.7 1.0 CD2 B:LEU145 4.9 1.0 1.0 O B:LEU145 4.9 0.2 1.0 OD1 C:ASP177 4.9 0.2 1.0 C C:GLU176 4.9 0.6 1.0 CD B:GLU146 5.0 0.6 1.0 CA C:GLU176 5.0 0.5 1.0

Zinc binding site 2 out of 3 in the Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1318 b:0.2 occ:1.00 OE1 C:GLU221 2.5 0.0 0.5 OE1 A:GLU221 2.5 0.0 0.5 CG C:GLU221 2.9 0.0 0.5 OE1 E:GLU221 3.2 0.0 0.5 OE1 B:GLU221 3.2 0.0 0.5 CD C:GLU221 3.3 0.2 0.5 CG A:GLU221 3.3 0.0 0.5 CD A:GLU221 3.4 0.2 0.5 CG E:GLU221 3.6 0.0 0.5 CB C:GLU221 3.7 0.2 0.5 CB C:GLU221 3.7 0.8 0.5 OE2 C:GLU221 3.7 0.9 0.5 CD C:GLU221 3.8 0.5 0.5 CG B:GLU221 3.8 0.0 0.5 OE1 D:GLU221 3.9 0.0 0.5 CG C:GLU221 4.0 0.9 0.5 OE2 C:GLU221 4.0 0.3 0.5 OE2 A:GLU221 4.0 0.3 0.5 OE2 E:GLU221 4.0 0.9 0.5 CB E:GLU221 4.1 0.2 0.5 CB A:GLU221 4.1 0.8 0.5 CB A:GLU221 4.1 0.2 0.5 CB E:GLU221 4.1 0.8 0.5 CD E:GLU221 4.1 0.2 0.5 CD B:GLU221 4.2 0.2 0.5 OE2 B:GLU221 4.2 0.9 0.5 OE2 A:GLU221 4.2 0.9 0.5 CG A:GLU221 4.2 0.9 0.5 OE2 D:GLU221 4.3 0.9 0.5 CD A:GLU221 4.3 0.5 0.5 CG D:GLU221 4.3 0.0 0.5 CD E:GLU221 4.3 0.5 0.5 CB B:GLU221 4.5 0.2 0.5 CB B:GLU221 4.5 0.8 0.5 CD B:GLU221 4.6 0.5 0.5 CG E:GLU221 4.7 0.9 0.5 CD D:GLU221 4.8 0.2 0.5 CD D:GLU221 4.8 0.5 0.5 OE2 B:GLU221 4.9 0.3 0.5 CG B:GLU221 4.9 0.9 0.5 OE2 E:GLU221 5.0 0.3 0.5 OE1 C:GLU221 5.0 0.7 0.5

Zinc binding site 3 out of 3 in the Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Pentameric Ligand Gated Ion Channel Glic in Complex with Zinc Ion (ZN2+) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1317 b:1.0 occ:1.00 CD D:PRO95 3.0 1.0 1.0 CG D:PRO95 3.4 0.0 1.0 OG D:SER94 3.7 0.6 1.0 O D:ARG61 4.0 0.5 1.0 CG D:ARG61 4.3 0.8 1.0 N D:PRO95 4.4 0.7 1.0 CB D:PRO95 4.7 0.2 1.0 C D:ARG61 4.8 0.3 1.0 CB D:SER94 4.9 0.6 1.0 CG2 D:VAL62 4.9 0.5 1.0 NE D:ARG61 4.9 0.5 1.0 CA D:SER94 5.0 0.4 1.0

R.J.C.Hilf, C.Bertozzi, I.Zimmermann, A.Reiter, D.Trauner, R.Dutzler. Structural Basis of Open Channel Block in A Prokaryotic Pentameric Ligand-Gated Ion Channel Nat.Struct.Mol.Biol. V. 17 1330 2010.
ISSN: ISSN 1545-9993
PubMed: 21037567
DOI: 10.1038/NSMB.1933