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Zinc in PDB 3dp4: Crystal Structure of the Binding Domain of the Ampa Subunit GLUR3 Bound to Ampa

Protein crystallography data

The structure of Crystal Structure of the Binding Domain of the Ampa Subunit GLUR3 Bound to Ampa, PDB code: 3dp4 was solved by A.H.Ahmed, Q.Wang, H.Sondermann, R.E.Oswald, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.11
Space group P 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 47.342, 47.342, 138.268, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 26

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Binding Domain of the Ampa Subunit GLUR3 Bound to Ampa (pdb code 3dp4). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Binding Domain of the Ampa Subunit GLUR3 Bound to Ampa, PDB code: 3dp4:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3dp4

Go back to Zinc Binding Sites List in 3dp4
Zinc binding site 1 out of 2 in the Crystal Structure of the Binding Domain of the Ampa Subunit GLUR3 Bound to 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 Binding Domain of the Ampa Subunit GLUR3 Bound to Ampa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:40.1
occ:1.00
NE2 A:HIS23 2.2 33.6 1.0
CD2 A:HIS23 3.1 32.1 1.0
CE1 A:HIS23 3.2 33.3 1.0
CG A:HIS23 4.3 33.8 1.0
ND1 A:HIS23 4.3 34.3 1.0
CG A:GLU24 4.6 40.1 1.0
CD A:GLU24 4.8 40.9 1.0
OE2 A:GLU24 4.8 43.2 1.0
CD2 A:TYR19 4.9 38.1 1.0

Zinc binding site 2 out of 2 in 3dp4

Go back to Zinc Binding Sites List in 3dp4
Zinc binding site 2 out of 2 in the Crystal Structure of the Binding Domain of the Ampa Subunit GLUR3 Bound to 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 Binding Domain of the Ampa Subunit GLUR3 Bound to Ampa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:0.4
occ:1.00
OE1 A:GLU42 2.6 47.4 1.0
NE2 A:HIS46 3.1 44.2 1.0
CD2 A:LEU241 3.3 29.2 1.0
CD2 A:HIS46 3.8 43.6 1.0
CD A:GLU42 3.8 45.4 1.0
CE1 A:HIS46 4.1 44.0 1.0
OE1 A:GLN244 4.1 44.3 1.0
CG1 A:ILE246 4.5 32.4 1.0
CB A:GLU42 4.6 36.2 1.0
CG A:GLU42 4.6 41.9 1.0
OE2 A:GLU42 4.7 47.0 1.0
CG A:LEU241 4.7 28.3 1.0
O A:GLU42 4.8 32.9 1.0
CD1 A:ILE246 4.9 32.8 1.0
CG A:HIS46 4.9 42.6 1.0
CA A:GLU42 5.0 33.7 1.0

Reference:

A.H.Ahmed, Q.Wang, H.Sondermann, R.E.Oswald. Structure of the S1S2 Glutamate Binding Domain of GLUR3. Proteins V. 75 628 2008.
ISSN: ISSN 0887-3585
PubMed: 19003990
DOI: 10.1002/PROT.22274
Page generated: Wed Dec 16 04:13:32 2020

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