Chlorine in PDB 8dcg: Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii

All present enzymatic activity of Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii:
6.5.1.8;

The structure of Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii, PDB code: 8dcg was solved by A.Jacewicz, S.Dantuluri, S.Shuman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.85 / 2.35
Space group	P 43
Cell size a, b, c (Å), α, β, γ (°)	143.56, 143.56, 80.301, 90, 90, 90
R / Rfree (%)	19.1 / 21.7

The binding sites of Chlorine atom in the Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii (pdb code 8dcg). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii, PDB code: 8dcg:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl515 b:73.5 occ:0.88 CB A:HIS242 3.2 52.3 1.0 CD1 A:TYR94 3.5 47.1 1.0 CG A:HIS242 3.6 61.5 1.0 CA A:HIS242 4.0 48.5 1.0 CE1 A:TYR94 4.1 44.9 1.0 CG A:TYR94 4.2 47.2 1.0 CD2 A:HIS242 4.2 67.3 1.0 ND1 A:HIS242 4.3 66.2 1.0 O A:HIS242 4.4 45.7 1.0 C A:HIS242 4.4 45.9 1.0 CB A:TYR94 4.4 46.2 1.0 OG A:SER246 4.7 43.9 0.5 NH2 A:ARG190 4.9 61.8 1.0

Chlorine binding site 2 out of 4 in the Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl516 b:80.0 occ:0.88 N A:ASP340 3.2 64.1 1.0 NZ A:LYS58 3.5 59.2 1.0 CA A:ASP340 3.7 69.0 1.0 OD1 A:ASP340 3.9 99.8 1.0 C A:VAL339 4.3 63.4 1.0 CA A:VAL339 4.5 59.1 1.0 CE A:LYS58 4.5 52.6 1.0 CG A:ASP340 4.6 84.8 1.0 N A:GLY341 4.6 67.1 1.0 CB A:ASP340 4.7 71.6 1.0 C A:ASP340 4.7 67.3 1.0 O A:GLU338 4.9 55.7 1.0

Chlorine binding site 3 out of 4 in the Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl514 b:80.1 occ:1.00 NE B:ARG190 3.3 73.4 1.0 NE2 B:GLN194 3.4 79.1 1.0 NH2 B:ARG190 3.7 81.1 1.0 NH2 A:ARG436 3.9 54.8 1.0 CZ B:ARG190 3.9 76.7 1.0 CE2 A:PHE124 4.1 49.2 1.0 CD B:ARG190 4.2 63.2 1.0 CG B:ARG190 4.3 60.8 1.0 CD B:GLN194 4.4 61.9 1.0 CZ A:PHE124 4.5 51.3 1.0 OE1 B:GLN194 4.7 62.4 1.0 CA B:GLY239 4.9 56.7 1.0

Chlorine binding site 4 out of 4 in the Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of Guanylylated Rna Ligase Rtcb From Pyrococcus Horikoshii within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl515 b:81.9 occ:1.00 N B:ASP340 3.4 67.5 1.0 NZ B:LYS58 3.6 55.6 1.0 O B:GLU338 4.1 57.1 1.0 CA B:VAL339 4.2 61.0 1.0 CA B:ASP340 4.2 72.0 1.0 C B:VAL339 4.2 65.8 1.0 CE B:LYS58 4.6 52.0 1.0 N B:GLY341 4.7 72.0 1.0 C B:GLU338 4.8 57.4 1.0 N B:VAL339 4.9 59.8 1.0 CD B:LYS58 4.9 50.7 1.0 O B:LYS396 4.9 47.5 1.0

A.Jacewicz, S.Dantuluri, S.Shuman. Structures of Rna Ligase Rtcb in Complexes with Divalent Cations and Gtp. Rna V. 28 1509 2022.
ISSN: ESSN 1469-9001
PubMed: 36130078
DOI: 10.1261/RNA.079327.122