Sodium in PDB 3cc9: Crystal Structure of Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase in Complex with Geranylgeranyl Diphosphate

The structure of Crystal Structure of Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase in Complex with Geranylgeranyl Diphosphate, PDB code: 3cc9 was solved by A.K.Wernimont, J.Dunford, J.Lew, Y.Zhao, I.Kozieradzki, D.Cossar, M.Schapira, A.Bochkarev, C.H.Arrowsmith, C.Bountra, J.Weigelt, A.M.Edwards, R.Hui, J.D.Artz, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.61 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	107.095, 108.985, 141.354, 90.00, 90.00, 90.00
R / Rfree (%)	24.1 / 29.6

The binding sites of Sodium atom in the Crystal Structure of Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase in Complex with Geranylgeranyl Diphosphate (pdb code 3cc9). 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 Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase in Complex with Geranylgeranyl Diphosphate, PDB code: 3cc9:

Sodium binding site 1 out of 1 in the Crystal Structure of Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase in Complex with Geranylgeranyl Diphosphate


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 Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase in Complex with Geranylgeranyl Diphosphate within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:54.4 occ:1.00 O A:HOH503 2.8 38.9 1.0 NE A:ARG84 2.8 56.9 1.0 O A:HOH504 2.9 48.5 1.0 OE2 A:GLU116 2.9 50.3 1.0 NH1 A:ARG84 3.0 54.1 1.0 N A:ARG84 3.3 53.2 1.0 CZ A:ARG84 3.4 55.0 1.0 N A:ASN83 3.6 53.4 1.0 OE1 A:GLU116 3.6 50.2 1.0 CD A:GLU116 3.6 50.7 1.0 CB A:ARG84 3.7 53.0 1.0 CA A:ASN82 3.9 53.7 1.0 C A:ASN82 3.9 53.4 1.0 O1B A:GRG501 3.9 45.8 1.0 CD A:ARG84 3.9 53.7 1.0 CG A:ARG84 4.0 53.4 1.0 N A:ASN82 4.0 53.8 1.0 CA A:ARG84 4.1 53.1 1.0 CA A:ASN83 4.3 53.4 1.0 C A:ASN83 4.3 53.1 1.0 O2A A:GRG501 4.4 49.2 1.0 CG A:GLN119 4.4 48.7 1.0 CB A:ASN83 4.5 53.5 1.0 O A:ASN82 4.6 53.5 1.0 NH2 A:ARG84 4.7 53.2 1.0 N A:GLY85 4.7 52.8 1.0 NE2 A:GLN119 4.7 49.5 1.0 CD A:GLN119 4.8 49.5 1.0 O3B A:GRG501 4.8 47.6 1.0 CB A:GLN119 4.8 48.6 1.0 PB A:GRG501 4.9 46.5 1.0 C A:ARG84 5.0 53.0 1.0

A.K.Wernimont, J.Dunford, J.Lew, Y.Zhao, I.Kozieradzki, D.Cossar, M.Schapira, A.Bochkarev, C.H.Arrowsmith, C.Bountra, J.Weigelt, A.M.Edwards, R.Hui, J.D.Artz. Crystal Structure of Plasmodium Vivax Putative Polyprenyl Pyrophosphate Synthase in Complex with Geranylgeranyl Diphosphate. To Be Published.