Atomistry » Sodium » PDB 7g33-7g48
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Sodium in PDB, part 243 (files: 9681-9720), PDB 7g33-7g48

Experimental structures of coordination spheres of Sodium (Na) in bioorganic molecules from X-Ray and NMR experiments. Coordination spheres were calculated with 5.0 Angstroms radius around Sodium atoms. PDB files: 9681-9720 (PDB 7g33-7g48).
  1. 7g33 (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with (3,5- Dichlorophenyl)Methyl 7-(3H-Benzotriazole-5-Carbonylamino)-5-Oxa-2- Azaspiro[3.4]Octane-2-Carboxylate, I.E. Smiles C12(C[C@@H](CO1) Nc(=O)C1CC3C(CC1)N=NN3)Cn(C2)C(=O)OCC1CC(Cc(C1)Cl)Cl with IC50=0.00754101 Microm
    Other atoms: Ca (2); Cl (2); Zn (1);
  2. 7g34 (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 3-[(4- Chlorophenyl)Methyl]-5-Methyl-5-(4-Methylphenyl)Imidazolidine-2,4- Dione, I.E. Smiles N1(C(=O)N[C@](C1=O)(C1CCC(CC1)C)C)CC1CCC(Cl)CC1 with IC50=0.956439 Microm
    Other atoms: K (1); Cl (3); Zn (1); Ca (1);
  3. 7g35 (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 3-(2,4- Dichlorophenyl)-N-[(4S)-2-[2-(Methylamino)-2-Oxoethyl]-3-Oxo-4,5- Dihydro-1H-2-Benzazepin-4-Yl]Propanamide, I.E. Smiles C1CCCC2C1C[C@@H](C(=O)N(C2)Cc(=O)Nc)Nc(=O)CCC1C(Cc(CC1)Cl)Cl with IC50=1.93883 Microm
    Other atoms: Ca (1); Zn (1); Cl (2);
  4. 7g36 (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 1H-Benzotriazol-5- Yl-[Rac-(1R,2S,6R,7S)-9-[5-Cyclopropyl-6-(Cyclopropylmethoxy) Pyridine-2-Carbonyl]-4,9-Diazatricyclo[5.3.0.02,6]Decan-4- Yl]Methanone, I.E. Smiles N1(C[C@H]2[C@@H](C1)[C@H]1[C@@H]2CN(C1) C(=O)C1CCC2C(C1)N=NN2)C(=O)C1NC(C(CC1)C1CC1)OCC1CC1 with IC50=0.0606197 Microm
    Other atoms: Zn (1); Cl (1); K (1); Ca (1);
  5. 7g37 (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 1H-Benzotriazol-5- Yl-[Rac-(1R,2S,6R,7S)-9-[5-Chloro-4-(Cyclopropylmethoxy)Pyridine-2- Carbonyl]-4,9-Diazatricyclo[5.3.0.02,6]Decan-4-Yl]Methanone, I.E. Smiles N1(C[C@H]2[C@@H](C1)[C@H]1[C@@H]2CN(C1)C(=O)C1CCC2C(C1)N=NN2) C(=O)C1CC(C(CN1)Cl)OCC1CC1 with IC50=0.190022 Microm
    Other atoms: Ca (1); K (1); Zn (1); Cl (2);
  6. 7g38 (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 3-[3-[[(4- Bromophenyl)Methylamino]Methyl]Indol-1-Yl]-N-Methylpropanamide
    Other atoms: Ca (1); Zn (1); Br (1);
  7. 7g39 (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 3-[(4-Chloro-5- Methyl-2-Propan-2-Ylphenoxy)Methyl]-1H-Indazole, I.E. Smiles C(C1=NNC2C1CCCC2)OC1CC(C(CC1C(C)C)Cl)C with IC50=0.065046 Microm
    Other atoms: Cl (2); Zn (1); K (1); Ca (1);
  8. 7g3a (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Methyl-4-[(5-Oxo-4-Propan-2-Yl-1H-1,2,4-Triazol-3-Yl) Methoxy]Benzonitrile, I.E. Smiles C(C1=Nnc(=O)N1C(C)C) OC1CC(C(CC1C(C)(C)C)C#N)C with IC50=0.0371228 Microm
    Other atoms: Zn (1); Ca (2);
  9. 7g3b (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 3-[(2-Tert-Butyl-4- Methylsulfonylphenoxy)Methyl]-4-Methyl-1H-1,2,4-Triazol-5-One, I.E. Smiles O(C1CCC(CC1C(C)(C)C)S(=O)(=O)C)CC1=Nnc(=O)N1C with IC50=3.84238 Microm
    Other atoms: Zn (1); Ca (2);
  10. 7g3c (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 2-(3,4- Dichlorophenyl)-1-[8-[(4-Fluorophenyl)Methyl]-3,4-Dihydro-1H- Isoquinolin-2-Yl]Ethanone, I.E. Smiles FC1CCC(CC1)CC1C2CN(C(=O) CC3CCC(Cl)C(Cl)C3)CCC2CCC1 with IC50=0.769073 Microm
    Other atoms: F (1); Ca (2); Zn (1); Cl (3);
  11. 7g3d (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 4-Tert-Butyl-2- Chloro-5-(1H-Pyrazolo[3,4-B]Pyridin-3-Ylmethoxy)Benzonitrile, I.E. Smiles Cc(C)(C)C1CC(Cl)C(C#N)CC1OCC1=NNC2NCCCC12 with IC50=0.0201187 Microm
    Other atoms: Zn (1); Cl (2); Ca (2);
  12. 7g3e (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Methyl-4-[[3-(2-Oxa-7-Azaspiro[4.4]Nonane-7-Carbonyl)-1H-Pyrazol-5- Yl]Methoxy]Benzonitrile, I.E. Smiles CC1CC(C(CC1C#N)C(C)(C)C) OCC1=Cc(=NN1)C(=O)N1CC[C@]2(CCOC2)C1 with IC50=0.00824801 Microm
    Other atoms: Ca (2); Zn (1); Cl (2); K (1);
  13. 7g3f (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 2-[(2-Tert-Butyl-5- Chloro-4-Cyanophenoxy)Methyl]-3-Methylimidazole-4-Carbonitrile, I.E. Smiles C1C(C(Cc(C1C(C)(C)C)OCC1=Nc=C(N1C)C#N)Cl)C#N with IC50=0.0496453 Microm
    Other atoms: Zn (1); Cl (2); Ca (2);
  14. 7g3g (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Methyl-4-[(2-Oxo-1H-Pyridin-3-Yl)Methoxy]Benzonitrile, I.E. Smiles N#CC1CC(C(C)(C)C)C(OCC2=Cc=CNC2=O)CC1C with IC50=0.0896883 Microm
    Other atoms: Ca (2); Cl (1); Zn (1);
  15. 7g3h (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with [2-[[(2R)-5-Chloro- 2,3-Dihydro-1H-Inden-2-Yl]Amino]Pyrimidin-5-Yl]-(6-Oxa-1- Azaspiro[3.3]Heptan-1-Yl)Methanone, I.E. Smiles CLC1CCC2C(C1) C[C@@H](C2)NC1NCC(CN1)C(=O)N1CCC21COC2 with IC50=0.0678127 Microm
    Other atoms: K (1); Cl (3); Zn (1); Ca (2);
  16. 7g3i (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with (6-Methylsulfonyl- 1,6-Diazaspiro[3.3]Heptan-1-Yl)-[2-[[3-Propan-2-Yl-5- (Trifluoromethoxy)Phenyl]Methylamino]Pyrimidin-5-Yl]Methanone, I.E. Smiles Cc(C)C1CC(Cc(C1)Oc(F)(F)F)CNC1NCC(CN1)C(=O)N1CCC21CN(C2)S(=O) (=O)C with IC50=0.018213 Microm
    Other atoms: Ca (2); Cl (1); Zn (1); K (1); F (3);
  17. 7g3j (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Chloro-4-[[1-Methyl-5-(6-Oxa-1-Azaspiro[3.3]Heptane-1-Carbonyl) Imidazol-2-Yl]Methoxy]Benzonitrile, I.E. Smiles CLC1C(C#N)Cc(C(C)(C) C)C(C1)OCC1=Nc=C(C(=O)N2C3(CC2)COC3)N1C with IC50=0.124297 Microm
    Other atoms: Cl (1); Zn (1); K (1); Ca (2);
  18. 7g3k (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Chloro-4-[(7-Methyl-8-Oxo-5,6-Dihydroimidazo[1,5-A]Pyrazin-3-Yl) Methoxy]Benzonitrile, I.E. Smiles C1C(C(Cc(C1C(C)(C)C) OCC1=Nc=C2N1CCN(C2=O)C)Cl)C#N with IC50=0.416172 Microm
    Other atoms: K (1); Zn (1); Cl (1); Ca (2);
  19. 7g3l (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 2-[(2-Tert-Butyl-5- Chloro-4-Cyanophenoxy)Methyl]-N,3-Dimethylimidazole-4-Carboxamide, I.E. Smiles CLC1C(C#N)Cc(C(C)(C)C)C(C1)OCC1=Nc=C(C(=O)Nc)N1C with IC50=0.0853541 Microm
    Other atoms: K (1); Zn (1); Cl (1); Ca (2);
  20. 7g3m (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 2-[(2-Tert-Butyl-5- Chloro-4-Cyanophenoxy)Methyl]-3-Methyl-N-(Oxetan-3-Yl)Imidazole-4- Carboxamide, I.E. Smiles CLC1C(C#N)Cc(C(C)(C)C)C(C1)OCC1=Nc=C(C(=O) NC2COC2)N1C with IC50=0.0161695 Microm
    Other atoms: Ca (2); K (1); Zn (1); Cl (1);
  21. 7g3n (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with [2-[[(2R)-5-Chloro- 2,3-Dihydro-1H-Inden-2-Yl]Amino]Pyrimidin-5-Yl]-(6-Hydroxy-6-Methyl- 1-Azaspiro[3.3]Heptan-1-Yl)Methanone, I.E. Smiles CC1(O) CC2(CCN2C(=O)C3CNC(N[C@@H]4CC5CCC(Cl)CC5C4)NC3)C1 with IC50=0.0155951 Microm
    Other atoms: Ca (2); K (1); Zn (1); Cl (1);
  22. 7g3o (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 1-[2-(2,3-Dihydro- 1H-Inden-2-Ylamino)-5,7-Dihydropyrrolo[3,4-D]Pyrimidin-6-Yl]-2-[2- (1H-Triazol-5-Yl)Ethoxy]Ethanone, I.E. Smiles C12C(CCCC1)Cc(C2) NC1NCC2C(N1)Cn(C2)C(=O)COCCC1=Cn=NN1 with IC50=0.0017376 Microm
    Other atoms: K (1); Zn (1); Ca (2);
  23. 7g3p (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with [2-[(4,6-Dichloro- 2,3-Dihydro-1H-Inden-2-Yl)Amino]Pyrimidin-5-Yl]-(6-Oxa-1- Azaspiro[3.3]Heptan-1-Yl)Methanone, I.E. Smiles C1(Cl) C2C[C@@H](NC3NCC(CN3)C(=O)N3CCC43COC4)CC2CC(Cl)C1 with IC50=0.0133598 Microm
    Other atoms: Cl (2); Zn (1); K (1); Ca (2);
  24. 7g3q (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 2-[(2-Tert-Butyl-5- Chloro-4-Cyanophenoxy)Methyl]-N-(1,1-Dioxothietan-3-Yl)-3- Methylimidazole-4-Carboxamide, I.E. Smiles CLC1C(C#N)Cc(C(C)(C)C) C(C1)OCC1=Nc=C(C(=O)NC2CS(=O)(=O)C2)N1C with IC50=0.0049749 Microm
    Other atoms: Ca (2); Cl (3); Zn (1); K (1);
  25. 7g3r (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Methyl-4-[(6-Oxo-4,5-Dihydro-1H-Pyridazin-3-Yl)Methoxy]Benzonitrile, I.E. Smiles O=C1NN=C(CC1)COC1CC(C)C(C#N)CC1C(C)(C)C with IC50=0.0299365 Microm
    Other atoms: Ca (2); Zn (1);
  26. 7g3s (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 2-[(5-Chloro-2,3- Dihydro-1H-Inden-2-Yl)Amino]-6-(Oxetan-3-Yl)-7H-Pyrrolo[3,4- D]Pyrimidin-5-One, I.E. Smiles O=C1N(C2COC2)CC2NC(N[C@H]3CC4C(C3) Ccc(C4)Cl)NCC12 with IC50=0.150181 Microm
    Other atoms: Zn (1); Cl (2); Ca (2);
  27. 7g3t (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with (2S)-6-Chloro-2- [[5-(6-Oxa-1-Azaspiro[3.3]Heptane-1-Carbonyl)Pyrimidin-2-Yl]Amino]-2, 3-Dihydro-1H-Indene-4-Carbonitrile, I.E. Smiles C1C2CC(Cc(C#N) C2C[C@H]1NC1NCC(CN1)C(=O)N1C2(COC2)CC1)Cl with IC50=0.00758135 Microm
    Other atoms: Cl (1); Zn (1); K (1); Ca (2);
  28. 7g3u (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Chloro-4-[[1-Methyl-5-[5-(Oxetan-3-Yl)-1,2-Oxazol-3-Yl]Imidazol-2- Yl]Methoxy]Benzonitrile, I.E. Smiles C1C(C(Cc(C1C(C)(C)C) OCC1=Nc=C(N1C)C1=Noc(=C1)C1COC1)Cl)C#N with IC50=0.0167757 Microm
    Other atoms: Ca (2); Cl (3); Zn (1); K (1);
  29. 7g3v (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 5-Tert-Butyl-2- Chloro-4-[[5-(6-Methoxypyrimidin-4-Yl)-1-Methylimidazol-2- Yl]Methoxy]Benzonitrile, I.E. Smiles C1C(C(Cc(C1C(C)(C)C) OCC1=Nc=C(N1C)C1CC(NCN1)Oc)Cl)C#N with IC50=0.0417382 Microm
    Other atoms: Ca (2); K (1); Zn (1); Cl (1);
  30. 7g3w (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with N-[(2R)-5-Chloro-2, 3-Dihydro-1H-Inden-2-Yl]-5-(3-Methyl-1,2,4-Oxadiazol-5-Yl)Pyrimidin- 2-Amine, I.E. Smiles C1C(Cnc(N1)N[C@H]1CC2CC(Cl)CCC2C1)C1=Nc(=NO1)C with IC50=0.186827 Microm
    Other atoms: Ca (2); Cl (1); Zn (1); K (1);
  31. 7g3x (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with (2S)-1-[2-(2,1,3- Benzothiadiazol-4-Yloxy)Acetyl]Azetidine-2-Carboxamide
    Other atoms: Ca (2); Zn (1); K (1);
  32. 7g3y (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with N-(5-Chloro-2,3- Dihydro-1H-Inden-2-Yl)-6-(Oxetan-3-Ylsulfonyl)-5,7-Dihydropyrrolo[3, 4-D]Pyrimidin-2-Amine, I.E. Smiles CLC1CC2C(CC1)C[C@@H](C2) NC1NCC2CN(CC2N1)S(=O)(=O)C1COC1 with IC50=0.0214337 Microm
    Other atoms: K (1); Cl (2); Zn (1); Ca (2);
  33. 7g3z (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 3-(2-Fluoro-4- Methylphenyl)-N-[(5-Methylpyrazin-2-Yl)Methyl]-5-(5-Propyltetrazol-1- Yl)Benzamide, I.E. Smiles C(C1NCC(NC1)C)Nc(=O)C1CC(Cc(N2C(=Nn=N2) Ccc)C1)C1CCC(CC1F)C with IC50=0.771863 Microm
    Other atoms: F (1); Zn (1); Cl (1); Ca (2);
  34. 7g40 (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 1H-Benzotriazol-5- Yl-[Rac-(1R,2S,6R,7S)-9-[1-(2,2,2-Trifluoroethoxy)Isoquinoline-3- Carbonyl]-4,9-Diazatricyclo[5.3.0.02,6]Decan-4-Yl]Methanone, I.E. Smiles N1(C[C@H]2[C@@H](C1)[C@H]1[C@@H]2CN(C1)C(=O)C1CCC2C(C1)N=NN2) C(=O)C1NC(C2C(C1)CCCC2)Occ(F)(F)F with IC50=0.0187536 Microm
    Other atoms: Cl (1); Zn (1); Ca (2); F (6);
  35. 7g42 (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 4-[[6-Chloro-2-[3- (1H-Imidazol-5-Yl)Propanoyl]-3,4-Dihydro-1H-Pyrido[3,4-B]Indol-9- Yl]Methyl]Benzonitrile, I.E. Smiles C12=C(Cn(CC1)C(=O)CCC1=Cn=CN1) N(C1C2CC(CC1)Cl)CC1CCC(CC1)C#N with IC50=1.37998 Microm
    Other atoms: Cl (2); Zn (1); Ca (2);
  36. 7g43 (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 3-[(6-Cyclopropyl- 2-Methyl-1,3-Benzothiazol-5-Yl)Oxymethyl]-4-Methyl-1H-1,2,4-Triazol- 5-One, I.E. Smiles C(C1=Nnc(=O)N1C)OC1CC2C(CC1C1CC1)Sc(=N2)C with IC50=1.05467 Microm
    Other atoms: Ca (1); K (1); Cl (1); Zn (1);
  37. 7g45 (Na: 1) - Crystal Structure of Rat Autotaxin in Complex with 3-(4-Chloro-5- Methyl-2-Propan-2-Ylphenyl)-4-Methyl-1H-1,2,4-Triazol-5-One, I.E. Smiles C1C(C(Cc(C1C(C)C)C1=Nnc(=O)N1C)C)Cl with IC50=0.843581 Microm
    Other atoms: Cl (3); Zn (1); K (1); Ca (2);
  38. 7g46 (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with [4- (Trifluoromethoxy)Phenyl]Methyl (3AS,6AS)-2-[(5R)-4,5,6,7-Tetrahydro- 1H-Benzotriazole-5-Carbonyl]-1,3,3A,4,6,6A-Hexahydropyrrolo[3,4- C]Pyrrole-5-Carboxylate, I.E. Smiles N1(C[C@@H]2[C@@H](C1)Cn(C2) C(=O)OCC1CCC(CC1)Oc(F)(F)F)C(=O)[C@@H]1CCC2=C(C1)N=NN2 with IC50=0.00614797 Microm
    Other atoms: Cl (1); Zn (1); Ca (1); F (3);
  39. 7g47 (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with 3-[4- (Cyclopropylmethoxy)Naphthalen-2-Yl]-4-Methyl-1H-1,2,4-Triazol-5-One
    Other atoms: Ca (1); Zn (1); Cl (1);
  40. 7g48 (Na: 2) - Crystal Structure of Rat Autotaxin in Complex with [(3AS,6AS)-5-(4- Methoxynaphthalene-2-Carbonyl)-1,3,3A,4,6,6A-Hexahydropyrrolo[3,4- C]Pyrrol-2-Yl]-(1H-Benzotriazol-5-Yl)Methanone, I.E. Smiles N1(C[C@@H]2[C@@H](C1)Cn(C2)C(=O)C1CC(C2C(C1)CCCC2)Oc)C(=O) C1CCC2C(C1)N=NN2 with IC50=0.11329 Microm
    Other atoms: Zn (1); Ca (2);
Page generated: Tue Feb 25 11:40:27 2025

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