Chlorine in PDB 6ywo: Cuta in Complex with A3 Rna

The structure of Cuta in Complex with A3 Rna, PDB code: 6ywo was solved by D.Malik, K.Kobylecki, P.Krawczyk, J.Poznanski, A.Jakielaszek, A.Napiorkowska, A.Dziembowski, R.Tomecki, M.Nowotny, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.26 / 1.90
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	56.920, 56.950, 149.890, 79.86, 87.12, 75.83
R / Rfree (%)	17.6 / 21.3

The structure of Cuta in Complex with A3 Rna also contains other interesting chemical elements:

Magnesium

(Mg)

12 atoms

The binding sites of Chlorine atom in the Cuta in Complex with A3 Rna (pdb code 6ywo). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Cuta in Complex with A3 Rna, PDB code: 6ywo:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Cuta in Complex with A3 Rna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Cuta in Complex with A3 Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl701 b:50.3 occ:1.00 OG A:SER328 2.9 40.1 1.0 NZ A:LYS425 3.0 53.3 1.0 ND2 A:ASN331 3.0 28.3 1.0 CD1 A:ILE448 3.0 35.3 1.0 N A:SER328 3.7 26.1 1.0 CA A:SER328 3.7 31.7 1.0 CB A:SER328 3.9 32.9 1.0 CG A:ASN331 3.9 28.1 1.0 OD1 A:ASN331 4.0 28.0 1.0 CE A:LYS425 4.1 42.9 1.0 O A:HOH858 4.3 46.2 1.0 C A:GLY327 4.3 30.2 1.0 CD1 A:LEU333 4.4 27.2 1.0 O3' F:A0 4.4 58.9 0.9 CG1 A:ILE448 4.4 34.9 1.0 CB A:LEU333 4.5 24.6 1.0 OG A:SER444 4.6 45.0 1.0 CB A:SER444 4.7 35.3 1.0 CD A:LYS425 4.7 46.5 1.0 O F:HOH102 4.7 30.3 1.0 O A:HOH900 4.7 36.4 1.0 O A:GLY327 4.9 28.1 1.0 CA A:GLY327 4.9 28.3 1.0 O A:HOH888 4.9 49.8 1.0

Chlorine binding site 2 out of 2 in the Cuta in Complex with A3 Rna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Cuta in Complex with A3 Rna within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl701 b:51.4 occ:1.00 OG B:SER328 2.8 31.6 0.5 CD1 B:ILE448 3.0 38.3 1.0 ND2 B:ASN331 3.1 24.7 1.0 NZ B:LYS425 3.4 52.3 1.0 CE B:LYS425 3.5 47.0 1.0 CB B:SER328 3.7 32.7 0.5 CB B:SER328 3.8 32.7 0.5 CA B:SER328 3.9 33.0 0.5 CA B:SER328 3.9 33.0 0.5 N B:SER328 3.9 27.6 1.0 CG B:ASN331 4.1 24.9 1.0 OD1 B:ASN331 4.1 29.8 1.0 CD B:LYS425 4.3 48.1 1.0 O B:HOH833 4.3 44.8 1.0 OG B:SER444 4.3 47.5 1.0 CG1 B:ILE448 4.4 34.2 1.0 CD1 B:LEU333 4.4 25.6 1.0 CB B:LEU333 4.4 27.3 1.0 CB B:SER444 4.5 36.4 1.0 O3' E:A0 4.5 88.6 0.9 C B:GLY327 4.5 29.4 1.0 O B:HOH927 4.7 36.0 1.0 O E:HOH105 4.9 29.4 1.0 OG B:SER328 5.0 35.0 0.5 CG B:LEU333 5.0 25.8 1.0

D.Malik, K.Kobylecki, P.Krawczyk, J.Poznanski, A.Jakielaszek, A.Napiorkowska, A.Dziembowski, R.Tomecki, M.Nowotny. Structure and Mechanism of Cuta, Rna Nucleotidyl Transferase with An Unusual Preference For Cytosine. Nucleic Acids Res. V. 48 9387 2020.
ISSN: ESSN 1362-4962
PubMed: 32785623
DOI: 10.1093/NAR/GKAA647