Sodium in PDB 8tkb: Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp

The structure of Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp, PDB code: 8tkb was solved by A.Jacewicz, S.Dantuluri, S.Shuman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.14 / 1.71
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	38.937, 43.665, 122.861, 90, 90, 90
R / Rfree (%)	18.5 / 20.9

The structure of Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp also contains other interesting chemical elements:

Chlorine	(Cl)	7 atoms
Potassium	(K)	4 atoms

The binding sites of Sodium atom in the Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp (pdb code 8tkb). 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 Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp, PDB code: 8tkb:

Sodium binding site 1 out of 1 in the Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na214 b:39.0 occ:0.87 O2P A:AMP201 2.4 32.9 1.0 CL A:CL213 2.6 67.3 1.0 NE2 A:HIS134 2.7 32.3 1.0 CE1 A:HIS134 3.6 37.0 1.0 P A:AMP201 3.7 30.2 1.0 CD2 A:HIS134 3.7 30.3 1.0 O5' A:AMP201 3.7 29.0 1.0 O A:HOH374 4.1 43.1 1.0 NH2 A:ARG115 4.2 42.2 1.0 O3P A:AMP201 4.4 30.7 1.0 O A:HOH314 4.7 35.9 1.0 ND1 A:HIS134 4.8 30.9 1.0 CG A:HIS134 4.8 25.8 1.0 O1P A:AMP201 4.9 34.5 1.0

A.Jacewicz, S.Dantuluri, S.Shuman. Trna 2-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 5'-Amp To Be Published.