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Zinc in PDB 1p1q: Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa

Protein crystallography data

The structure of Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa, PDB code: 1p1q was solved by N.Armstrong, M.L.Mayer, E.Gouaux, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 2.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 113.942, 163.642, 47.116, 90.00, 90.00, 90.00
R / Rfree (%) 21.7 / 27

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa (pdb code 1p1q). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa, PDB code: 1p1q:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in 1p1q

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Zinc binding site 1 out of 5 in the Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:17.4
occ:1.00
OE2 B:GLU166 1.9 14.1 1.0
OE1 A:GLU42 1.9 17.7 1.0
NE2 A:HIS46 2.2 16.0 1.0
CD B:GLU166 2.6 19.3 1.0
OE1 B:GLU166 2.7 17.7 1.0
CD A:GLU42 2.9 18.2 1.0
O B:HOH766 3.0 7.1 1.0
CD2 A:HIS46 3.1 14.2 1.0
CE1 A:HIS46 3.2 18.4 1.0
OE2 A:GLU42 3.2 16.9 1.0
CD2 A:LEU241 4.1 9.8 1.0
CG B:GLU166 4.1 15.7 1.0
CG A:GLU42 4.3 13.9 1.0
ND1 A:HIS46 4.3 17.8 1.0
CG A:HIS46 4.3 16.3 1.0
N B:SER168 4.3 9.2 1.0
O B:ALA165 4.5 12.7 1.0
CB B:GLU166 4.7 15.8 1.0
CB A:GLU42 4.7 10.6 1.0
CB B:SER168 4.8 7.5 1.0
CA B:SER168 4.8 7.6 1.0
CA B:GLU166 4.8 14.9 1.0
CD A:LYS45 4.9 23.8 1.0
C B:PRO167 4.9 11.1 1.0
CA B:PRO167 4.9 11.5 1.0

Zinc binding site 2 out of 5 in 1p1q

Go back to Zinc Binding Sites List in 1p1q
Zinc binding site 2 out of 5 in the Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn502

b:23.7
occ:1.00
NE2 B:HIS23 2.0 16.2 1.0
OE2 B:GLU30 2.5 26.3 1.0
OE1 B:GLU30 2.8 28.6 1.0
CD2 B:HIS23 2.9 19.4 1.0
CD B:GLU30 3.0 24.8 1.0
CE1 B:HIS23 3.0 18.3 1.0
CG B:HIS23 4.1 22.0 1.0
ND1 B:HIS23 4.1 21.1 1.0
CD B:LYS20 4.1 20.6 1.0
NZ B:LYS20 4.3 26.1 1.0
O B:GLU30 4.3 19.9 1.0
CG B:GLU30 4.5 29.1 1.0
CE B:LYS20 4.8 22.2 1.0
CD1 B:LEU26 5.0 32.5 1.0

Zinc binding site 3 out of 5 in 1p1q

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Zinc binding site 3 out of 5 in the Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn504

b:17.3
occ:1.00
NE2 B:HIS46 2.0 13.9 1.0
OE1 B:GLU42 2.1 17.2 1.0
CE1 B:HIS46 2.9 17.2 1.0
CD B:GLU42 3.0 14.3 1.0
CD2 B:HIS46 3.1 12.6 1.0
OE2 B:GLU42 3.3 15.1 1.0
CD2 B:LEU241 3.5 15.0 1.0
ND1 B:HIS46 4.0 16.8 1.0
CG B:HIS46 4.2 13.1 1.0
O B:HOH683 4.2 25.8 1.0
CG B:GLU42 4.4 11.9 1.0
CB B:GLU42 4.7 7.6 1.0
O B:HOH662 4.8 44.9 1.0
OE1 B:GLN244 4.9 39.1 1.0
CG B:LEU241 4.9 14.2 1.0

Zinc binding site 4 out of 5 in 1p1q

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Zinc binding site 4 out of 5 in the Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn503

b:27.0
occ:1.00
OD2 C:ASP65 2.2 19.6 1.0
OD1 C:ASP65 2.7 20.8 1.0
CG C:ASP65 2.8 17.4 1.0
CB C:ASP65 4.3 18.0 1.0
CG2 C:THR68 5.0 17.6 1.0

Zinc binding site 5 out of 5 in 1p1q

Go back to Zinc Binding Sites List in 1p1q
Zinc binding site 5 out of 5 in the Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of the GLUR2 Ligand Binding Core (S1S2J) L650T Mutant in Complex with Ampa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn505

b:52.5
occ:1.00
OE1 C:GLU42 2.4 31.4 1.0
CE1 C:HIS46 2.4 36.4 1.0
NE2 C:HIS46 3.3 38.1 1.0
CD C:GLU42 3.3 31.9 1.0
ND1 C:HIS46 3.4 34.5 1.0
OE2 C:GLU42 3.6 34.2 1.0
OE1 C:GLN244 3.6 42.9 1.0
CD2 C:LEU241 3.8 16.7 1.0
CD C:GLN244 4.5 39.6 1.0
NE2 C:GLN244 4.5 43.7 1.0
CD2 C:HIS46 4.5 37.0 1.0
CG C:HIS46 4.6 33.6 1.0
CG C:GLU42 4.7 28.5 1.0
CD C:LYS45 4.9 36.5 1.0
CB C:GLU42 5.0 22.9 1.0

Reference:

N.Armstrong, M.Mayer, E.Gouaux. Tuning Activation of the Ampa-Sensitive GLUR2 Ion Channel By Genetic Adjustment of Agonist-Induced Conformational Changes. Proc.Natl.Acad.Sci.Usa V. 100 5736 2003.
ISSN: ISSN 0027-8424
PubMed: 12730367
DOI: 10.1073/PNAS.1037393100
Page generated: Mon Jan 25 16:11:18 2021

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