Atomistry » Zinc » PDB 3ljm-3lsx » 3lsf
Atomistry »
  Zinc »
    PDB 3ljm-3lsx »
      3lsf »

Zinc in PDB 3lsf: Piracetam Bound to the Ligand Binding Domain of GLUA2

Protein crystallography data

The structure of Piracetam Bound to the Ligand Binding Domain of GLUA2, PDB code: 3lsf was solved by A.H.Ahmed, C.P.Ptak, R.E.Oswald, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.26 / 1.85
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.275, 114.023, 163.779, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 22.8

Zinc Binding Sites:

The binding sites of Zinc atom in the Piracetam Bound to the Ligand Binding Domain of GLUA2 (pdb code 3lsf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Piracetam Bound to the Ligand Binding Domain of GLUA2, PDB code: 3lsf:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in 3lsf

Go back to Zinc Binding Sites List in 3lsf
Zinc binding site 1 out of 5 in the Piracetam Bound to the Ligand Binding Domain of GLUA2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Piracetam Bound to the Ligand Binding Domain of GLUA2 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn1

b:4.1
occ:1.00
OD2 E:ASP65 2.1 26.2 1.0
CG E:ASP65 2.8 28.1 1.0
OD1 E:ASP65 2.9 31.2 1.0
O E:HOH426 3.6 36.9 1.0
CB E:ASP65 4.3 23.7 1.0
OD1 E:ASP67 4.4 46.7 1.0
CB E:ASP67 4.6 39.1 1.0
O E:HOH318 4.9 35.8 1.0
CG E:ASP67 4.9 47.2 1.0

Zinc binding site 2 out of 5 in 3lsf

Go back to Zinc Binding Sites List in 3lsf
Zinc binding site 2 out of 5 in the Piracetam Bound to the Ligand Binding Domain of GLUA2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Piracetam Bound to the Ligand Binding Domain of GLUA2 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn3

b:4.8
occ:1.00
NE2 E:HIS23 2.1 38.5 1.0
CD2 E:HIS23 2.8 37.2 1.0
CE1 E:HIS23 3.3 37.1 1.0
CG E:GLU24 3.6 45.6 1.0
OE1 E:GLU24 4.0 52.4 1.0
CG E:HIS23 4.1 35.9 1.0
CD E:GLU24 4.1 54.8 1.0
ND1 E:HIS23 4.3 33.4 1.0
CE E:MET19 4.6 40.3 1.0
CB E:GLU24 4.9 50.4 1.0
OE2 E:GLU24 5.0 57.8 1.0

Zinc binding site 3 out of 5 in 3lsf

Go back to Zinc Binding Sites List in 3lsf
Zinc binding site 3 out of 5 in the Piracetam Bound to the Ligand Binding Domain of GLUA2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Piracetam Bound to the Ligand Binding Domain of GLUA2 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn401

b:52.1
occ:1.00
OE2 E:GLU42 2.0 42.1 1.0
NE2 E:HIS46 2.3 42.5 1.0
CD E:GLU42 2.9 35.8 1.0
CE1 E:HIS46 3.2 38.9 1.0
OE1 E:GLU42 3.3 31.5 1.0
CD2 E:HIS46 3.3 34.9 1.0
NE2 E:GLN244 3.7 20.0 1.0
CD2 E:LEU241 4.0 25.8 1.0
CG E:GLU42 4.2 37.6 1.0
OE1 E:GLN244 4.3 20.0 1.0
ND1 E:HIS46 4.4 40.5 1.0
CD E:GLN244 4.4 20.0 1.0
CG E:HIS46 4.5 37.4 1.0
CD E:LYS45 4.6 41.2 1.0
CB E:GLU42 4.7 28.6 1.0
CE E:LYS45 4.7 44.3 1.0

Zinc binding site 4 out of 5 in 3lsf

Go back to Zinc Binding Sites List in 3lsf
Zinc binding site 4 out of 5 in the Piracetam Bound to the Ligand Binding Domain of GLUA2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Piracetam Bound to the Ligand Binding Domain of GLUA2 within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn2

b:41.8
occ:1.00
OE1 H:GLU166 1.6 31.6 1.0
NE2 B:HIS46 2.1 24.1 1.0
CD H:GLU166 2.3 24.3 1.0
OE2 B:GLU42 2.3 30.2 1.0
OE2 H:GLU166 2.4 23.8 1.0
CE1 B:HIS46 3.0 31.1 1.0
CD2 B:HIS46 3.1 24.0 1.0
CD B:GLU42 3.1 24.9 1.0
OE1 B:GLU42 3.3 20.9 1.0
CG H:GLU166 3.8 22.2 1.0
CD2 B:LEU241 3.9 25.3 1.0
ND1 B:HIS46 4.2 23.1 1.0
CG B:HIS46 4.2 26.1 1.0
N H:SER168 4.4 19.9 1.0
CB H:GLU166 4.4 24.5 1.0
CG B:GLU42 4.5 20.0 1.0
O H:ALA165 4.5 16.5 1.0
CE B:LYS45 4.6 32.8 1.0
CD B:LYS45 4.6 34.9 1.0
O H:HOH565 4.7 26.6 1.0
CA H:GLU166 4.8 20.1 1.0
CB B:GLU42 4.9 15.1 1.0
CB H:SER168 5.0 20.7 1.0
CA H:SER168 5.0 17.4 1.0
C H:PRO167 5.0 19.6 1.0

Zinc binding site 5 out of 5 in 3lsf

Go back to Zinc Binding Sites List in 3lsf
Zinc binding site 5 out of 5 in the Piracetam Bound to the Ligand Binding Domain of GLUA2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Piracetam Bound to the Ligand Binding Domain of GLUA2 within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn401

b:46.6
occ:1.00
NE2 H:HIS46 1.9 28.4 1.0
OE2 H:GLU42 2.4 28.1 1.0
CE1 H:HIS46 2.9 26.5 1.0
CD2 H:HIS46 2.9 20.8 1.0
CD H:GLU42 3.3 27.2 1.0
OE1 H:GLN244 3.4 36.8 1.0
OE1 H:GLU42 3.5 32.1 1.0
CD2 H:LEU241 3.7 26.9 1.0
CE H:LYS45 3.9 32.8 1.0
ND1 H:HIS46 4.0 28.9 1.0
CG H:HIS46 4.1 25.2 1.0
NZ H:LYS45 4.1 42.0 1.0
CD H:GLN244 4.3 34.1 1.0
NE2 H:GLN244 4.5 36.5 1.0
CG H:GLU42 4.7 21.5 1.0
CB H:GLU42 5.0 15.4 1.0

Reference:

A.H.Ahmed, R.E.Oswald. Piracetam Defines A New Binding Site For Allosteric Modulators of Alpha-Amino-3-Hydroxy-5-Methyl-4-Isoxazole-Propionic Acid (Ampa) Receptors. J.Med.Chem. V. 53 2197 2010.
ISSN: ISSN 0022-2623
PubMed: 20163115
DOI: 10.1021/JM901905J
Page generated: Sat Oct 26 08:50:03 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy