Chlorine in PDB 8b02: Crystal Structure of the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica

The structure of Crystal Structure of the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica, PDB code: 8b02 was solved by L.Pecqueur, B.Faivre, D.Hamdane, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.04 / 1.68
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	29.077, 56.895, 63.587, 90, 93.05, 90
R / Rfree (%)	20.4 / 22.8

The binding sites of Chlorine atom in the Crystal Structure of the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica (pdb code 8b02). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Crystal Structure of the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica, PDB code: 8b02:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Crystal Structure of the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica


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 the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl202 b:33.5 occ:1.00 NH1 A:ARG20 3.1 48.9 1.0 O A:HOH343 3.2 21.4 1.0 N A:LYS78 3.2 25.4 1.0 ND2 A:ASN82 3.4 29.9 1.0 CA A:ALA77 3.7 24.0 1.0 CB A:ALA77 3.7 23.9 1.0 CG A:LYS78 3.8 37.2 1.0 C A:ALA77 3.9 24.4 1.0 CB A:LYS78 4.1 30.4 1.0 CG A:ARG20 4.1 32.9 1.0 CB A:ASN82 4.1 22.9 1.0 CA A:LYS78 4.2 26.8 1.0 CG A:ASN82 4.3 28.4 1.0 CZ A:ARG20 4.3 49.1 1.0 O A:HOH338 4.3 53.6 1.0 CD A:ARG20 4.4 39.8 1.0 CD A:LYS78 4.8 44.3 1.0 NE A:ARG20 4.8 45.9 1.0 CE A:LYS78 4.9 50.0 1.0 O A:HOH331 4.9 26.8 1.0 O A:TRP76 5.0 24.6 1.0 N A:ALA77 5.0 23.8 1.0

Chlorine binding site 2 out of 2 in the Crystal Structure of the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of the Dsrbd Domain of Trna-Dihydrouridine(20) Synthase From Amphimedon Queenslandica within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl205 b:28.5 occ:1.00 ND2 B:ASN82 3.2 24.1 1.0 O B:HOH330 3.2 26.8 1.0 N B:LYS78 3.3 22.6 1.0 NH1 B:ARG20 3.3 42.4 1.0 CB B:ALA77 3.7 20.4 1.0 CA B:ALA77 3.8 21.0 1.0 CG B:LYS78 3.8 33.4 1.0 CB B:ASN82 3.9 19.4 1.0 CG B:ASN82 4.0 22.4 1.0 C B:ALA77 4.1 21.8 1.0 CB B:LYS78 4.1 28.0 1.0 CG B:ARG20 4.2 30.5 1.0 CA B:LYS78 4.3 24.2 1.0 O B:HOH311 4.3 35.1 1.0 CD B:ARG20 4.5 36.3 1.0 CZ B:ARG20 4.5 43.2 1.0 O B:TYR21 4.7 25.6 1.0 NE B:ARG20 5.0 40.9 1.0 N B:SER79 5.0 22.4 1.0

M.Lombard, C.J.Reed, L.Pecqueur, B.Faivre, S.Toubdji, C.Sudol, D.Bregeon, V.De Crecy-Lagard, D.Hamdane. Evolutionary Diversity of DUS2 Enzymes Reveals Novel Structural and Functional Features Among Members of the Rna Dihydrouridine Synthases Family. Biomolecules V. 12 2022.
ISSN: ESSN 2218-273X
PubMed: 36551188
DOI: 10.3390/BIOM12121760