Chlorine in PDB 6t46: Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide

The structure of Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide, PDB code: 6t46 was solved by I.Crespo, N.Bernardo, W.J.J.Meijer, D.R.Boer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.42 / 2.45
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	116.670, 93.282, 167.687, 90.00, 94.97, 90.00
R / Rfree (%)	20.2 / 26.2

The structure of Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Chlorine atom in the Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide (pdb code 6t46). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide, PDB code: 6t46:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in the Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl401 b:65.0 occ:1.00 NZ A:LYS215 2.9 47.0 1.0 CE A:LYS251 3.3 52.1 1.0 CD A:LYS251 3.6 57.4 1.0 CE A:LYS215 3.6 40.8 1.0 CH2 A:TRP245 4.4 48.9 1.0 CZ3 A:TRP245 4.5 49.9 1.0 O B:TYR5 4.6 46.8 1.0 NZ A:LYS251 4.7 59.0 1.0

Chlorine binding site 2 out of 3 in the Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl401 b:73.2 occ:1.00 NH2 C:ARG362 2.7 53.6 1.0 N A:LEU190 3.7 42.4 1.0 N A:ASP191 3.9 63.4 1.0 O A:GLY188 3.9 46.4 1.0 CZ C:ARG362 4.1 62.6 1.0 CB A:LEU190 4.1 40.6 1.0 CA A:LEU190 4.4 42.5 1.0 CB A:ASP191 4.4 71.5 1.0 C A:ARG189 4.5 46.0 1.0 C A:LEU190 4.6 49.0 1.0 CG A:ASP191 4.6 84.5 1.0 CA A:ARG189 4.6 45.3 1.0 NE C:ARG362 4.7 59.8 1.0 CG A:LEU190 4.7 37.5 1.0 CA A:ASP191 4.8 62.8 1.0 OD2 A:ASP191 4.8 85.1 1.0 NZ A:LYS227 5.0 63.6 1.0 C A:GLY188 5.0 33.8 1.0

Chlorine binding site 3 out of 3 in the Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of the Rap Conjugation Gene Regulator of the Plasmid PLS20 in Complex with the Phr* Peptide within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl401 b:71.9 occ:1.00 N E:VAL151 2.8 45.3 1.0 OE1 E:GLN148 3.0 49.7 1.0 N E:LEU150 3.1 60.0 1.0 C E:GLN148 3.2 47.0 1.0 O E:GLN148 3.3 49.1 1.0 CB E:LEU150 3.5 49.1 1.0 CA E:LEU150 3.5 57.9 1.0 CA E:GLN148 3.5 47.2 1.0 CB E:VAL151 3.6 43.4 1.0 N E:HIS149 3.6 45.9 1.0 CB E:GLN148 3.6 40.0 1.0 CG2 E:VAL151 3.6 46.3 1.0 C E:LEU150 3.6 55.4 1.0 CA E:VAL151 3.8 45.0 1.0 C E:HIS149 3.9 47.4 1.0 CD E:GLN148 4.0 58.5 1.0 OE1 G:GLN148 4.3 57.4 1.0 CA E:HIS149 4.4 46.0 1.0 CG E:GLN148 4.4 43.6 1.0 CG E:LEU150 4.7 48.9 1.0 O E:HIS149 4.8 50.6 1.0 O E:LEU150 4.8 61.4 1.0 N E:SER152 4.9 58.3 1.0 C E:VAL151 4.9 47.5 1.0 CG1 E:VAL151 5.0 36.6 1.0 N E:GLN148 5.0 53.1 1.0

I.Crespo, N.Bernardo, A.Miguel-Arribas, P.K.Singh, J.R.Luque-Ortega, C.Alfonso, M.Malfois, W.J.J.Meijer, D.R.Boer. Inactivation of the Dimeric RAPPLS20 Anti-Repressor of the Conjugation Operon Is Mediated By Signaling Peptide-Induced Tetramerization Nucleic Acids Res. 2020.
ISSN: ESSN 1362-4962