Chlorine in PDB 5dar: Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii

The structure of Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii, PDB code: 5dar was solved by A.G.Gabdulkhakov, I.V.Mitroshin, M.B.Garber, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	72.396, 88.451, 95.231, 90.00, 102.19, 90.00
R / Rfree (%)	26.4 / 29.7

The structure of Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii also contains other interesting chemical elements:

Magnesium	(Mg)	8 atoms
Potassium	(K)	5 atoms

The binding sites of Chlorine atom in the Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii (pdb code 5dar). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii, PDB code: 5dar:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in the Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii


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 Base of the Ribosomal P Stalk From Methanococcus Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1306 b:9.2 occ:1.00 N1 A:A1194 2.9 9.6 1.0 N2 A:G1164 3.5 10.1 1.0 C2 A:A1194 3.5 9.7 1.0 O4' A:G1165 3.7 9.3 1.0 C1' A:G1165 3.8 8.8 1.0 C6 A:A1194 3.9 9.9 1.0 N3 A:G1164 3.9 10.1 1.0 N6 A:A1194 4.0 10.2 1.0 C2 A:G1164 4.2 10.2 1.0 O2' A:G1165 4.4 9.2 1.0 C1' A:C1216 4.5 9.7 1.0 O2 A:C1216 4.5 9.3 1.0 CA B:MET36 4.6 14.2 1.0 C4' A:G1165 4.7 9.6 1.0 N B:ASP37 4.7 14.8 1.0 O B:MET35 4.7 13.5 1.0 C2' A:G1165 4.7 9.1 1.0 O2' A:G1164 4.8 10.2 1.0 N9 A:G1165 4.8 8.6 1.0 N3 A:A1194 4.8 9.5 1.0 O4' A:C1216 4.9 9.9 1.0 O2 A:C1215 5.0 6.2 1.0 O2' A:C1216 5.0 9.6 1.0

Chlorine binding site 2 out of 3 in the Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii


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 Base of the Ribosomal P Stalk From Methanococcus Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl301 b:43.5 occ:1.00 NZ B:LYS79 2.9 26.6 1.0 CB B:ILE204 3.5 23.6 1.0 CG2 B:ILE204 3.8 24.2 1.0 O B:ILE204 4.1 23.4 1.0 N B:ILE204 4.1 24.1 1.0 CA B:ILE204 4.3 23.8 1.0 CE B:LYS79 4.4 27.0 1.0 CG1 B:ILE204 4.5 22.9 1.0 C B:ILE204 4.6 24.2 1.0 CD1 B:ILE204 4.7 22.4 1.0 OH B:TYR86 4.8 28.2 1.0 CG2 B:ILE203 4.8 25.9 1.0 CG1 B:ILE203 4.9 24.7 1.0

Chlorine binding site 3 out of 3 in the Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ F:Cl201 b:38.7 occ:1.00 N F:ALA112 3.4 37.4 1.0 CA F:LYS109 3.4 34.7 1.0 CB F:ALA112 3.5 36.9 1.0 O F:MET108 3.5 45.5 1.0 C F:LYS109 3.5 34.7 1.0 O F:LYS109 3.7 36.9 1.0 N F:ASP111 3.8 35.2 1.0 CA F:ALA112 4.0 35.5 1.0 N F:LYS110 4.1 34.7 1.0 CE F:LYS109 4.2 31.0 1.0 C F:ASP111 4.2 38.4 1.0 CD F:LYS109 4.2 32.1 1.0 N F:LYS109 4.3 36.4 1.0 OD1 F:ASP111 4.3 38.9 1.0 C F:MET108 4.3 40.0 1.0 CA F:ASP111 4.3 37.6 1.0 CB F:ASP111 4.5 39.4 1.0 CB F:LYS109 4.5 34.5 1.0 CG F:LYS109 4.6 33.2 1.0 CB F:ILE69 4.6 60.5 1.0 CD1 F:ILE69 4.6 61.6 1.0 C F:LYS110 4.6 35.0 1.0 CG F:ASP111 4.8 40.4 1.0 CA F:LYS110 4.9 35.8 1.0 CG2 F:ILE69 4.9 61.6 1.0

A.G.Gabdulkhakov, I.V.Mitroshin, M.B.Garber. Crystal Structure of the Base of the Ribosomal P Stalk From Methanococcus Jannaschii To Be Published.