Sodium in PDB 6jbc: Phosphotransferase Related to Coa Biosynthesis Pathway

All present enzymatic activity of Phosphotransferase Related to Coa Biosynthesis Pathway:
2.7.1.169;

The structure of Phosphotransferase Related to Coa Biosynthesis Pathway, PDB code: 6jbc was solved by A.Kita, A.Kishimoto, T.Shimosaka, H.Tomita, Y.Yokooji, T.Imanaka, H.Atomi, K.Miki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	100.00 / 2.70
Space group	P 3 2 1
Cell size a, b, c (Å), α, β, γ (°)	94.803, 94.803, 60.040, 90.00, 90.00, 120.00
R / Rfree (%)	22.9 / 27.8

The structure of Phosphotransferase Related to Coa Biosynthesis Pathway also contains other interesting chemical elements:

Calcium

(Ca)

3 atoms

The binding sites of Sodium atom in the Phosphotransferase Related to Coa Biosynthesis Pathway (pdb code 6jbc). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Phosphotransferase Related to Coa Biosynthesis Pathway, PDB code: 6jbc:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Phosphotransferase Related to Coa Biosynthesis Pathway


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Phosphotransferase Related to Coa Biosynthesis Pathway within 5.0Å range: probe atom residue distance (Å) B Occ A:Na810 b:29.9 occ:1.00 O A:PHE101 3.0 26.7 1.0 OD1 A:ASN103 3.1 20.2 1.0 O A:HOH904 3.1 19.8 1.0 CA A:ALA9 3.1 24.2 1.0 O A:HOH917 3.2 34.4 1.0 CB A:ALA9 3.4 21.9 1.0 N A:ASN103 3.6 19.6 1.0 C A:GLY102 3.6 21.4 1.0 OG1 A:THR39 3.6 18.0 1.0 O A:GLY102 3.7 21.2 1.0 CA A:ASN103 3.8 17.6 1.0 C A:PHE101 3.8 26.6 1.0 N A:ALA9 3.9 22.6 1.0 CG A:ASN103 4.2 18.1 1.0 O A:PRO8 4.2 23.3 1.0 C A:ALA9 4.2 24.6 1.0 N A:HIS10 4.3 27.2 1.0 CA A:GLY102 4.3 22.3 1.0 CB A:PHE101 4.4 27.7 1.0 C A:PRO8 4.4 22.3 1.0 N A:GLY102 4.4 24.2 1.0 NE2 A:GLN147 4.5 18.1 1.0 CA A:GLY38 4.6 20.6 1.0 CB A:ASN103 4.6 16.5 1.0 N A:THR39 4.6 21.1 1.0 CA A:PHE101 4.8 28.9 1.0 C A:GLY38 4.8 21.4 1.0 O A:ILE7 4.9 23.0 1.0 CB A:THR39 4.9 20.5 1.0 C A:ASN103 4.9 15.9 1.0

Sodium binding site 2 out of 2 in the Phosphotransferase Related to Coa Biosynthesis Pathway


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Phosphotransferase Related to Coa Biosynthesis Pathway within 5.0Å range: probe atom residue distance (Å) B Occ A:Na811 b:47.4 occ:1.00 O A:LEU169 2.5 28.2 1.0 C3 A:PG4801 2.9 58.0 1.0 O3 A:PG4801 2.9 57.4 1.0 C4 A:PG4801 3.1 57.5 1.0 N A:ILE152 3.4 28.6 1.0 CB A:ASN168 3.5 27.2 1.0 N A:LEU169 3.6 27.8 1.0 O A:ILE152 3.6 28.5 1.0 C A:LEU169 3.7 28.4 1.0 OD1 A:ASN168 3.7 23.9 1.0 C6 A:PG4801 3.8 62.1 1.0 C5 A:PG4801 4.0 59.7 1.0 CG A:ASN168 4.0 26.4 1.0 C A:ASN168 4.1 28.1 1.0 CA A:ASN168 4.1 26.6 1.0 CE1 A:PHE171 4.2 27.0 1.0 CA A:ILE152 4.2 27.6 1.0 C A:ILE152 4.2 27.6 1.0 CB A:ILE152 4.2 28.4 1.0 CA A:GLY151 4.2 27.2 1.0 CA A:LEU169 4.3 27.0 1.0 C A:GLY151 4.3 28.0 1.0 O2 A:PG4801 4.3 60.2 1.0 CD1 A:PHE171 4.3 27.5 1.0 N A:PHE170 4.8 29.6 1.0 C2 A:PG4801 4.8 59.4 1.0 O A:GLY150 4.8 23.1 1.0 CG1 A:ILE152 4.8 26.6 1.0 O A:ASN168 5.0 30.8 1.0

A.Kita, A.Kishimoto, T.Shimosaka, H.Tomita, Y.Yokooji, T.Imanaka, H.Atomi, K.Miki. Crystal Structure of Phosphotransferase Related to Coa Biosynthesis Pathway To Be Published.