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Magnesium in PDB 5sko: Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide

Enzymatic activity of Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide

All present enzymatic activity of Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide:
3.1.4.17;

Protein crystallography data

The structure of Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide, PDB code: 5sko was solved by C.Joseph, J.Benz, A.Flohr, K.Groebke-Zbinden, M.G.Rudolph, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.00 / 2.10
Space group I 2 3
Cell size a, b, c (Å), α, β, γ (°) 142.289, 142.289, 142.289, 90, 90, 90
R / Rfree (%) 19.4 / 23.1

Other elements in 5sko:

The structure of Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Chlorine (Cl) 3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide (pdb code 5sko). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide, PDB code: 5sko:

Magnesium binding site 1 out of 1 in 5sko

Go back to Magnesium Binding Sites List in 5sko
Magnesium binding site 1 out of 1 in the Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Human Phosphodiesterase 10 in Complex with N-(3- Imidazo[1,2-A]Pyridin-2-Ylphenyl)-1-Methyl-3-(Pyrimidin-5-Ylamino) Pyrazole-4-Carboxamide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg802

b:26.9
occ:1.00
 O A:HOH988 2.1 31.2 1.0
O A:HOH945 2.1 36.2 1.0
OD1 A:ASP564 2.1 29.0 1.0
O A:HOH940 2.2 36.6 1.0
O A:HOH1016 2.2 40.3 1.0
O A:HOH959 2.2 32.9 1.0
CG A:ASP564 3.1 31.9 1.0
O A:HOH981 3.5 44.4 1.0
OD2 A:ASP564 3.5 34.2 1.0
O A:HOH995 3.6 44.5 1.0
NE2 A:HIS595 3.9 32.8 1.0
O A:HOH1014 3.9 34.9 1.0
ZN A:ZN801 4.0 34.9 1.0
OE2 A:GLU592 4.1 35.6 1.0
OG1 A:THR633 4.1 32.6 1.0
CD2 A:HIS567 4.2 36.2 1.0
CD2 A:HIS595 4.3 34.5 1.0
O A:HOH906 4.3 35.1 1.0
O A:HIS563 4.3 30.7 1.0
CD2 A:HIS563 4.3 28.1 1.0
NE2 A:HIS567 4.4 35.5 1.0
CB A:ASP564 4.5 31.7 1.0
OD2 A:ASP674 4.5 36.6 1.0
O A:THR633 4.5 39.2 1.0
CB A:THR633 4.7 35.8 1.0
CD2 A:HIS525 4.8 34.1 1.0
CA A:ASP564 4.8 30.9 1.0
NE2 A:HIS563 4.8 27.5 1.0
CG A:GLU592 4.8 33.5 1.0
O A:HOH1011 4.9 41.8 1.0
CD A:GLU592 4.9 35.1 1.0

Reference:

A.Flohr, D.Schlatter, B.Kuhn, M.G.Rudolph. Crystal Structure of A Human Phosphodiesterase 10 Complex To Be Published.
Page generated: Tue Aug 12 20:19:27 2025

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