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Chlorine in PDB 7g68: Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm

Enzymatic activity of Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm

All present enzymatic activity of Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm:
3.1.4.39;

Protein crystallography data

The structure of Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm, PDB code: 7g68 was solved by M.Stihle, J.Benz, D.Hunziker, H.Ratni, M.G.Rudolph, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.04 / 1.95
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 84.43, 92.087, 120.241, 90, 90, 90
R / Rfree (%) 20.8 / 24.9

Other elements in 7g68:

The structure of Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm also contains other interesting chemical elements:

Calcium (Ca) 1 atom
Sodium (Na) 2 atoms
Zinc (Zn) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm (pdb code 7g68). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm, PDB code: 7g68:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 7g68

Go back to Chlorine Binding Sites List in 7g68
Chlorine binding site 1 out of 2 in the Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl901

b:37.1
occ:1.00
CL24 A:XKX901 0.0 37.1 1.0
C12 A:XKX901 1.8 32.3 1.0
C8 A:XKX901 2.6 34.9 1.0
C13 A:XKX901 2.8 31.2 1.0
C27 A:XKX901 3.0 29.2 1.0
CD2 A:PHE210 3.5 45.4 1.0
O A:PHE210 3.6 27.7 1.0
CH2 A:TRP254 3.6 36.3 1.0
CG A:PHE210 3.6 38.8 1.0
CZ3 A:TRP254 3.7 35.0 1.0
CA A:PHE210 3.7 29.4 1.0
CB A:PHE210 3.8 34.3 1.0
C6 A:XKX901 3.9 34.2 1.0
CE2 A:PHE210 4.1 43.4 1.0
C10 A:XKX901 4.1 29.7 1.0
C A:PHE210 4.1 27.4 1.0
CD1 A:PHE210 4.3 39.0 1.0
N A:TYR214 4.3 21.4 1.0
CB A:LEU213 4.3 22.0 1.0
CB A:TYR214 4.4 24.7 1.0
C3 A:XKX901 4.5 31.7 1.0
CZ A:PHE210 4.7 41.7 1.0
CE1 A:PHE210 4.8 40.4 1.0
CA A:TYR214 4.9 23.6 1.0
CZ2 A:TRP254 4.9 38.0 1.0
N A:PHE210 4.9 30.0 1.0
CD1 A:LEU213 4.9 24.9 1.0
C A:LEU213 4.9 23.0 1.0

Chlorine binding site 2 out of 2 in 7g68

Go back to Chlorine Binding Sites List in 7g68
Chlorine binding site 2 out of 2 in the Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Rat Autotaxin in Complex with 2-[6-Chloro-3-[4- (2-Methoxyphenyl)Piperidine-1-Carbonyl]-5-Methylindol-1-Yl]-N,N- Dimethylacetamide, I.E. Smiles C1(=Cn(C2C1CC(C(C2)Cl)C)Cc(=O)N(C)C) C(=O)N1CC[C@@H](C2C(Oc)CCCC2)CC1 with IC50=1.09041 Microm within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl902

b:49.4
occ:1.00
N A:ASN230 3.2 38.7 1.0
NH1 A:ARG391 3.5 41.3 1.0
CA A:GLY229 3.7 32.0 1.0
O A:HOH1090 3.7 51.9 1.0
N A:SER231 3.8 42.0 1.0
C A:GLY229 3.9 36.6 1.0
CE A:LYS208 4.0 36.8 1.0
CA A:ASN230 4.1 43.3 1.0
OG A:SER231 4.2 37.9 0.5
CG A:LYS208 4.2 27.9 1.0
CG1 A:VAL385 4.3 39.1 1.0
CB A:ASN230 4.3 41.1 1.0
O A:SER231 4.4 43.7 1.0
CD1 A:LEU389 4.4 37.4 1.0
C A:ASN230 4.5 45.9 1.0
CZ A:ARG391 4.6 41.2 1.0
CD A:LYS208 4.7 30.7 1.0
CG A:LEU389 4.8 38.1 1.0
CD2 A:LEU389 4.8 37.7 1.0
CA A:SER231 4.8 42.6 0.5
CA A:SER231 4.8 41.9 0.5
NH2 A:ARG391 4.9 42.0 1.0
CB A:SER231 5.0 41.9 0.5

Reference:

D.Hunziker, S.C.Joachim, C.Ullmer, M.G.Rudolph. Crystal Structure of A Rat Autotaxin Complex To Be Published.
Page generated: Sun Jul 13 01:12:05 2025

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