Chlorine in PDB 9jgd: Crystal Structure of NEP1 in Complex with 5'-Methylthioadenosine From Pyrococcus Horikoshii OT3

The structure of Crystal Structure of NEP1 in Complex with 5'-Methylthioadenosine From Pyrococcus Horikoshii OT3, PDB code: 9jgd was solved by S.Saha, S.P.Kanaujia, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	70.97 / 2.20
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	113.24, 113.24, 102.82, 90, 90, 120
R / Rfree (%)	18.5 / 25

The binding sites of Chlorine atom in the Crystal Structure of NEP1 in Complex with 5'-Methylthioadenosine From Pyrococcus Horikoshii OT3 (pdb code 9jgd). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Crystal Structure of NEP1 in Complex with 5'-Methylthioadenosine From Pyrococcus Horikoshii OT3, PDB code: 9jgd:

Chlorine binding site 1 out of 1 in the Crystal Structure of NEP1 in Complex with 5'-Methylthioadenosine From Pyrococcus Horikoshii OT3


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of NEP1 in Complex with 5'-Methylthioadenosine From Pyrococcus Horikoshii OT3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl301 b:69.2 occ:1.00 NH1 A:ARG86 3.4 44.5 1.0 N A:LYS5 4.0 41.8 1.0 NH2 A:ARG86 4.0 47.1 1.0 CB A:LYS4 4.0 53.5 1.0 CZ A:ARG86 4.2 47.1 1.0 CA A:LYS4 4.3 56.0 1.0 CG A:LYS5 4.5 46.9 1.0 CB A:LYS5 4.6 43.2 1.0 C A:LYS4 4.7 46.2 1.0 O A:HOH469 4.7 42.9 1.0 CA A:LYS5 4.9 40.5 1.0 CD A:LYS5 4.9 49.4 1.0

S.Saha, S.P.Kanaujia. Structural Analysis of the Ribosome Assembly Factor NEP1, An N1-Specific Pseudouridine Methyltransferase, Reveals Mechanistic Insights. Febs J. 2025.
ISSN: ISSN 1742-464X
PubMed: 39918246
DOI: 10.1111/FEBS.70005