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Zinc in PDB 4ajf: Identification and Structural Characterization of PDE10 Fragment Inhibitors

Enzymatic activity of Identification and Structural Characterization of PDE10 Fragment Inhibitors

All present enzymatic activity of Identification and Structural Characterization of PDE10 Fragment Inhibitors:
3.1.4.17; 3.1.4.35;

Protein crystallography data

The structure of Identification and Structural Characterization of PDE10 Fragment Inhibitors, PDB code: 4ajf was solved by P.Johansson, J.S.Albert, L.Spadola, T.Akerud, E.Back, P.Hillertz, R.Horsefeld, C.Scott, N.Spear, G.Tian, A.Tigerstrom, D.Aharony, S.Geschwindner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.25 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 49.371, 81.798, 156.596, 90.00, 90.00, 90.00
R / Rfree (%) 21.3 / 24.8

Other elements in 4ajf:

The structure of Identification and Structural Characterization of PDE10 Fragment Inhibitors also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Identification and Structural Characterization of PDE10 Fragment Inhibitors (pdb code 4ajf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Identification and Structural Characterization of PDE10 Fragment Inhibitors, PDB code: 4ajf:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4ajf

Go back to Zinc Binding Sites List in 4ajf
Zinc binding site 1 out of 2 in the Identification and Structural Characterization of PDE10 Fragment Inhibitors


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Identification and Structural Characterization of PDE10 Fragment Inhibitors within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1775

b:29.3
occ:1.00
OD1 A:ASP674 2.1 21.8 1.0
O A:HOH2079 2.2 26.1 1.0
NE2 A:HIS529 2.2 22.1 1.0
NE2 A:HIS563 2.2 25.1 1.0
OD2 A:ASP564 2.2 20.1 1.0
O A:HOH2062 2.6 36.8 1.0
CD2 A:HIS563 2.9 24.6 1.0
CG A:ASP674 3.0 30.1 1.0
CG A:ASP564 3.1 22.3 1.0
CD2 A:HIS529 3.2 22.6 1.0
CE1 A:HIS529 3.2 21.9 1.0
OD2 A:ASP674 3.3 40.2 1.0
CE1 A:HIS563 3.3 24.4 1.0
OD1 A:ASP564 3.6 24.6 1.0
MG A:MG1776 3.7 22.7 1.0
CD2 A:HIS525 4.0 28.2 1.0
O A:HOH2063 4.0 28.2 1.0
CG A:HIS563 4.1 24.5 1.0
O A:HOH2058 4.2 26.1 1.0
CG A:HIS529 4.3 21.0 1.0
ND1 A:HIS563 4.3 25.6 1.0
ND1 A:HIS529 4.3 22.2 1.0
CB A:ASP564 4.3 21.5 1.0
CB A:ASP674 4.4 21.1 1.0
NE2 A:HIS525 4.5 27.7 1.0
O A:HOH2078 4.6 24.4 1.0
O A:HOH2120 4.6 35.9 1.0
CG2 A:VAL533 4.7 17.2 1.0
O A:ASP674 4.8 20.5 1.0
CA A:ASP674 4.8 18.8 1.0

Zinc binding site 2 out of 2 in 4ajf

Go back to Zinc Binding Sites List in 4ajf
Zinc binding site 2 out of 2 in the Identification and Structural Characterization of PDE10 Fragment Inhibitors


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Identification and Structural Characterization of PDE10 Fragment Inhibitors within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1771

b:36.0
occ:1.00
NE2 D:HIS563 2.0 27.0 1.0
O D:HOH2059 2.1 25.9 1.0
NE2 D:HIS529 2.1 29.1 1.0
O D:HOH2049 2.2 28.5 1.0
OD1 D:ASP674 2.2 23.3 1.0
OD2 D:ASP564 2.3 28.1 1.0
CD2 D:HIS563 2.9 27.6 1.0
CG D:ASP564 2.9 33.1 1.0
CE1 D:HIS563 3.0 26.7 1.0
CD2 D:HIS529 3.1 29.8 1.0
CE1 D:HIS529 3.2 28.8 1.0
CG D:ASP674 3.2 25.2 1.0
OD1 D:ASP564 3.3 32.4 1.0
OD2 D:ASP674 3.5 33.2 1.0
MG D:MG1772 3.7 31.6 1.0
O D:HOH2048 3.9 29.5 1.0
O D:HOH2045 3.9 51.6 1.0
CG D:HIS563 4.1 26.9 1.0
ND1 D:HIS563 4.1 27.6 1.0
CB D:ASP564 4.1 29.9 1.0
CG D:HIS529 4.2 29.2 1.0
ND1 D:HIS529 4.3 30.0 1.0
CD2 D:HIS525 4.5 42.9 1.0
CB D:ASP674 4.6 20.0 1.0
O D:HOH2058 4.6 29.9 1.0
CG2 D:VAL533 4.8 21.9 1.0
CA D:ASP674 4.9 19.5 1.0
O D:ASP674 5.0 24.9 1.0

Reference:

P.Johansson, J.S.Albert, L.Spadola, T.Akerud, E.Back, P.Hillertz, R.Horsefeld, C.Scott, N.Spear, G.Tian, A.Tigerstrom, D.Aharony, S.Geschwindner. Identification and Structural Characterization of PDE10 Fragment Inhibitors To Be Published.
Page generated: Wed Dec 16 05:03:15 2020

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