Chlorine in PDB 8tfx: Trna 2'-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 2',5'-Adp

The structure of Trna 2'-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 2',5'-Adp, PDB code: 8tfx 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)	42.00 / 1.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	38.554, 44.626, 124.397, 90, 90, 90
R / Rfree (%)	17.6 / 20.3

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

Potassium

(K)

6 atoms

The binding sites of Chlorine atom in the Trna 2'-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 2',5'-Adp (pdb code 8tfx). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Trna 2'-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 2',5'-Adp, PDB code: 8tfx:
Jump to Chlorine binding site number: 1; 2;

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


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Trna 2'-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 2',5'-Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl209 b:37.9 occ:0.71 O A:HOH343 2.7 50.6 1.0 N A:ARG100 3.0 31.1 1.0 CD A:ARG100 3.1 57.3 1.0 CG A:ARG100 3.3 52.5 1.0 N A:ARG99 3.4 24.2 1.0 CB A:ARG100 3.6 33.1 1.0 CB A:VAL98 3.7 30.9 1.0 CB A:ASP137 3.8 32.4 1.0 CB A:ARG99 3.9 25.8 1.0 CA A:ARG100 3.9 31.0 1.0 CA A:ARG99 3.9 24.6 1.0 C A:ARG99 3.9 29.3 1.0 NH1 A:ARG100 4.0 48.9 1.0 C A:VAL98 4.0 27.5 1.0 O A:ASP137 4.1 27.7 1.0 CG2 A:VAL98 4.3 29.5 1.0 NE A:ARG100 4.3 73.9 1.0 OD1 A:ASP137 4.4 34.8 1.0 CA A:VAL98 4.4 23.3 1.0 CG1 A:VAL98 4.5 35.4 1.0 CG A:ASP137 4.6 33.0 1.0 CZ A:ARG100 4.6 83.7 1.0 CA A:ASP137 4.7 28.1 1.0 C A:ASP137 4.8 27.6 1.0 O A:VAL98 4.8 25.0 1.0 N A:ASP137 4.9 29.2 1.0

Chlorine binding site 2 out of 2 in the Trna 2'-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 2',5'-Adp


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Trna 2'-Phosphotransferase (TPT1) From Pyrococcus Horikoshii in Complex with 2',5'-Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl210 b:49.8 occ:0.71 K A:K213 2.5 42.0 0.7 OG1 A:THR130 2.9 47.9 1.0 CB A:THR130 3.6 35.9 1.0 CG2 A:THR130 3.8 42.1 1.0 CB A:SER121 3.8 27.3 1.0 O A:HOH411 4.0 50.8 1.0 O A:LEU120 4.1 24.1 1.0 C A:LEU120 4.1 24.8 1.0 CA A:ALA127 4.2 23.0 1.0 O A:ASP126 4.3 27.2 1.0 N A:SER121 4.3 22.7 1.0 O A:HOH339 4.4 46.7 1.0 CA A:SER121 4.5 23.5 1.0 N A:ALA127 4.6 24.1 1.0 OG A:SER121 4.6 31.8 1.0 C A:ASP126 4.6 28.3 1.0 CB A:ALA127 4.8 22.6 1.0 CA A:LEU120 4.8 19.6 1.0 N A:LEU120 4.9 22.2 1.0 O A:HIS119 4.9 27.2 1.0 C A:HIS119 4.9 24.6 1.0 O A:HOH327 5.0 48.7 1.0 CB A:HIS119 5.0 25.2 1.0

A.Jacewicz, S.Dantuluri, S.Shuman. Structural Basis For TPT1-Catalyzed 2'-Po 4 Transfer From Rna and Nadp(H) to Nad. Proc.Natl.Acad.Sci.Usa V. 120 99120 2023.
ISSN: ESSN 1091-6490
PubMed: 37883434
DOI: 10.1073/PNAS.2312999120