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

Protein crystallography data

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

Zinc Binding Sites:

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 2xq8

Go back to Zinc Binding Sites List in 2xq8
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 2xq8

Go back to Zinc Binding Sites List in 2xq8
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 2xq8

Go back to Zinc Binding Sites List in 2xq8
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

Reference:

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
Page generated: Wed Dec 16 04:00:22 2020

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