Chlorine in PDB 5dka: A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125

The structure of A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125, PDB code: 5dka was solved by D.R.Boer, M.Coll, M.J.Bijlmakers, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.71 / 1.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	51.670, 52.320, 73.970, 90.00, 90.00, 90.00
R / Rfree (%)	21 / 23.9

The structure of A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125 also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Zinc	(Zn)	6 atoms

The binding sites of Chlorine atom in the A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125 (pdb code 5dka). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125, PDB code: 5dka:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl304 b:59.1 occ:1.00 N A:LEU106 3.4 30.9 1.0 CG2 A:THR105 3.6 35.8 1.0 CB A:LEU106 4.0 29.7 1.0 O A:LEU106 4.0 29.3 1.0 CA A:LEU106 4.2 29.6 1.0 CA A:THR105 4.2 32.6 1.0 C A:THR105 4.3 31.1 1.0 CB A:THR105 4.5 34.4 1.0 C A:LEU106 4.6 29.1 1.0

Chlorine binding site 2 out of 4 in the A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl305 b:64.8 occ:1.00 CE3 B:TRP70 3.0 41.5 1.0 CZ3 B:TRP70 3.2 41.7 1.0 CD2 B:TRP70 3.3 38.7 1.0 N B:TRP70 3.3 34.3 1.0 CH2 B:TRP70 3.6 42.5 1.0 CE2 B:TRP70 3.6 40.6 1.0 CZ2 B:TRP70 3.8 42.2 1.0 CB B:LYS69 3.8 41.9 1.0 CA B:LYS69 4.0 39.5 1.0 CG B:TRP70 4.0 37.4 1.0 CA B:TRP70 4.1 32.1 1.0 C B:LYS69 4.2 35.2 1.0 CG B:GLU82 4.2 44.4 1.0 CB B:LEU65 4.2 26.2 1.0 CD B:LYS69 4.3 49.5 1.0 CG B:LYS69 4.3 46.7 1.0 CD1 B:LEU65 4.3 29.5 1.0 NE1 B:TRP70 4.4 39.6 1.0 CD2 B:LEU65 4.5 28.1 1.0 CG B:LEU65 4.6 26.6 1.0 CD1 B:TRP70 4.6 38.4 1.0 CD B:GLU82 4.6 51.0 1.0 O B:LEU65 4.7 31.9 1.0 CB B:TRP70 4.7 33.6 1.0 OE2 B:GLU82 4.8 55.0 1.0

Chlorine binding site 3 out of 4 in the A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl306 b:43.7 occ:1.00 N B:TYR78 3.0 24.9 1.0 CA B:ALA77 3.5 26.4 1.0 C B:ALA77 3.8 25.2 1.0 CB B:TYR78 3.8 28.1 1.0 CB B:ALA77 3.9 25.7 1.0 CA B:TYR78 4.0 26.6 1.0 O B:HOH403 4.4 34.6 1.0 O B:ARG76 4.5 27.1 1.0 N B:ALA77 4.6 25.4 1.0 O B:TYR78 4.8 27.7 1.0 C B:TYR78 5.0 26.8 1.0 O B:ALA77 5.0 27.1 1.0 O B:HOH406 5.0 49.1 1.0

Chlorine binding site 4 out of 4 in the A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of A C2HC Zinc Finger Is Essential For the Activity of the Ring Ubiquitin Ligase RNF125 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl307 b:73.2 occ:1.00 N B:LEU106 3.2 23.7 1.0 O B:HOH416 3.3 27.3 1.0 CB B:LEU106 3.8 23.9 1.0 CA B:THR105 3.9 26.0 1.0 CG2 B:THR105 4.0 29.0 1.0 C B:THR105 4.0 24.8 1.0 CA B:LEU106 4.1 22.9 1.0 CB B:THR105 4.5 28.2 1.0 O B:ASP104 4.5 29.5 1.0 O B:LEU106 4.5 23.2 1.0 C B:LEU106 4.9 22.0 1.0

M.J.Bijlmakers, J.M.Teixeira, R.Boer, M.Mayzel, P.Puig-Sarries, G.Karlsson, M.Coll, M.Pons, B.Crosas. A C2HC Zinc Finger Is Essential For the Ring-E2 Interaction of the Ubiquitin Ligase RNF125. Sci Rep V. 6 29232 2016.
ISSN: ESSN 2045-2322
PubMed: 27411375
DOI: 10.1038/SREP29232