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Sodium in PDB 7g74: Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile

Enzymatic activity of Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile

All present enzymatic activity of Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile:
3.1.4.39;

Protein crystallography data

The structure of Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile, PDB code: 7g74 was solved by M.Stihle, J.Benz, D.Hunziker, E.Martin-Rainer, M.G.Rudolph, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.98 / 1.82
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 84.472, 92.279, 120.246, 90, 90, 90
R / Rfree (%) 18.2 / 22.2

Other elements in 7g74:

The structure of Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile also contains other interesting chemical elements:

Fluorine (F) 1 atom
Calcium (Ca) 2 atoms
Potassium (K) 1 atom
Zinc (Zn) 1 atom
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile (pdb code 7g74). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile, PDB code: 7g74:

Sodium binding site 1 out of 1 in 7g74

Go back to Sodium Binding Sites List in 7g74
Sodium binding site 1 out of 1 in the Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Rat Autotaxin in Complex with 4-[[4-[[6-(4- Acetylpiperazin-1-Yl)-4-Oxoquinazolin-3-Yl]Methyl]Triazol-1- Yl]Methyl]-2-Fluorobenzonitrile within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na906

b:31.1
occ:1.00
 O A:HOH1554 2.2 35.0 1.0
O A:HOH1335 2.4 28.7 1.0
OG A:SER807 2.4 29.5 1.0
O A:SER804 2.5 25.1 1.0
O A:ASN801 2.5 24.2 1.0
O A:HOH1082 2.6 33.1 1.0
C A:ASN801 3.4 22.4 1.0
C A:SER804 3.5 25.5 1.0
CB A:SER807 3.5 28.5 1.0
CA A:ASP802 3.9 25.7 1.0
O A:HOH1598 3.9 48.5 1.0
N A:ASP802 4.0 23.5 1.0
N A:SER807 4.1 28.9 1.0
O A:ASP802 4.1 23.9 1.0
C A:ASP802 4.2 25.2 1.0
CA A:CYS805 4.2 29.0 1.0
N A:CYS805 4.2 27.3 1.0
CA A:SER807 4.3 31.3 1.0
N A:SER804 4.3 21.5 1.0
C A:CYS805 4.3 29.8 1.0
O A:HOH1187 4.4 36.1 1.0
CA A:SER804 4.4 23.3 1.0
CB A:ASN801 4.4 21.9 1.0
O A:CYS805 4.5 32.8 1.0
CA A:ASN801 4.5 22.7 1.0
O A:HOH1235 4.5 30.4 1.0
OD1 A:ASP802 4.6 31.2 1.0
O A:HOH1239 4.7 34.8 1.0
CB A:SER804 4.7 23.0 1.0
N A:ASN806 4.9 28.6 1.0

Reference:

D.Hunziker, S.C.Joachim, C.Ullmer, M.G.Rudolph. Crystal Structure of A Rat Autotaxin Complex To Be Published.
Page generated: Sat Feb 8 23:32:55 2025

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