Atomistry » Calcium » PDB 7g63-7g76 » 7g6x
Atomistry »
  Calcium »
    PDB 7g63-7g76 »
      7g6x »

Calcium in PDB 7g6x: Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm

Enzymatic activity of Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm

All present enzymatic activity of Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm:
3.1.4.39;

Protein crystallography data

The structure of Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm, PDB code: 7g6x 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) 45.97 / 1.54
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 84.076, 91.944, 119.761, 90, 90, 90
R / Rfree (%) 18.2 / 21.3

Other elements in 7g6x:

The structure of Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm also contains other interesting chemical elements:

Sodium (Na) 2 atoms
Chlorine (Cl) 2 atoms
Zinc (Zn) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm (pdb code 7g6x). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm, PDB code: 7g6x:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 7g6x

Go back to Calcium Binding Sites List in 7g6x
Calcium binding site 1 out of 2 in the Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca904

b:25.5
occ:1.00
 OD1 A:ASP171 1.8 23.6 1.0
OG1 A:THR209 1.9 24.9 1.0
NE2 A:HIS359 2.0 16.9 1.0
OD2 A:ASP358 2.2 23.4 1.0
CG A:ASP171 2.7 26.4 1.0
CE1 A:HIS359 2.9 17.5 1.0
CB A:THR209 3.0 22.2 1.0
CG A:ASP358 3.0 19.1 1.0
CD2 A:HIS359 3.0 17.4 1.0
OD2 A:ASP171 3.1 38.6 1.0
CG2 A:THR209 3.3 23.2 1.0
OD1 A:ASP358 3.3 18.1 1.0
CA A:THR209 3.4 18.9 1.0
O A:HOH1150 3.8 35.5 1.0
N A:THR209 3.9 18.1 1.0
CB A:ASP171 4.0 18.9 1.0
OD2 A:ASP311 4.0 23.8 1.0
ND1 A:HIS359 4.0 17.5 1.0
CG A:HIS359 4.1 16.3 1.0
N A:GLY172 4.1 16.8 1.0
CA A:ASP171 4.2 18.2 1.0
O A:HOH1022 4.2 32.3 1.0
CB A:ASP358 4.3 17.4 1.0
CE1 A:HIS474 4.4 19.3 1.0
CG A:ASP311 4.4 20.3 1.0
O A:HOH1545 4.5 32.0 1.0
C A:ASP171 4.5 18.4 1.0
ZN A:ZN905 4.5 21.1 1.0
NE2 A:HIS474 4.6 17.5 1.0
C A:THR209 4.6 18.6 1.0
C A:LYS208 4.7 19.3 1.0
CB A:ASP311 4.8 19.7 1.0
OD1 A:ASP311 4.9 24.2 1.0
CA A:GLY172 5.0 17.7 1.0

Calcium binding site 2 out of 2 in 7g6x

Go back to Calcium Binding Sites List in 7g6x
Calcium binding site 2 out of 2 in the Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Rat Autotaxin in Complex with N-[(3,4- Dichlorophenyl)Methyl]-2-[4-Oxo-6-[4-(4-Sulfamoylbutanoyl)Piperazin- 1-Yl]Quinazolin-3-Yl]Acetamide, I.E. Smiles Ns(=O)(=O)Cccc(=O) N1CCN(C2CCC3C(C2)C(=O)N(C=N3)Cc(=O)NCC2CCC(C(C2)Cl)Cl)CC1 with IC50=0.00464057 Microm within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca907

b:18.3
occ:1.00
 O A:HOH1476 2.3 24.9 1.0
OD1 A:ASP747 2.3 21.0 1.0
OD1 A:ASN741 2.3 20.7 1.0
O A:LEU745 2.3 16.3 1.0
OD1 A:ASP739 2.3 18.5 1.0
OD1 A:ASP743 2.4 19.2 1.0
CG A:ASP743 3.3 21.2 1.0
CG A:ASN741 3.4 23.6 1.0
CG A:ASP739 3.5 17.6 1.0
C A:LEU745 3.5 16.4 1.0
CG A:ASP747 3.5 18.5 1.0
OD2 A:ASP743 3.7 23.7 1.0
ND2 A:ASN741 3.9 26.6 1.0
N A:ASP747 3.9 17.2 1.0
CA A:ASP739 4.0 14.5 1.0
C A:ARG746 4.0 17.6 1.0
N A:LEU745 4.1 16.2 1.0
CA A:ASP747 4.1 18.0 1.0
O A:ARG746 4.2 19.1 1.0
CB A:ASP739 4.2 16.0 1.0
CA A:LEU745 4.2 16.5 1.0
N A:ASP743 4.3 17.9 1.0
CB A:LEU745 4.4 16.8 1.0
O A:PHE738 4.4 17.1 1.0
OD2 A:ASP739 4.4 17.2 1.0
CB A:ASP747 4.4 18.5 1.0
OD2 A:ASP747 4.4 20.2 1.0
N A:ASN741 4.4 18.9 1.0
C A:ASP739 4.5 16.3 1.0
N A:ARG746 4.5 17.0 1.0
CB A:ASP743 4.6 20.2 1.0
OE2 A:GLU751 4.6 28.7 1.0
CB A:ASN741 4.7 22.3 1.0
N A:TYR740 4.7 16.9 1.0
CA A:ARG746 4.7 17.0 1.0
O A:HOH1480 4.7 30.6 1.0
N A:TYR742 4.8 17.9 1.0
CA A:ASP743 4.8 19.2 1.0
C A:ASN741 4.9 19.6 1.0
CA A:ASN741 4.9 19.2 1.0
N A:GLY744 4.9 17.6 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 15:59:09 2025

Last articles

Mo in 9CU2
Mo in 9CU1
Mo in 8RHP
Mo in 9CU0
Mo in 9CTZ
Mo in 9CJD
Mo in 9CJF
Mo in 9CJC
Mo in 9CJE
Mo in 9CJB
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy