Chlorine in PDB 5vpd: Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal

The structure of Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal, PDB code: 5vpd was solved by Z.Yin, M.Machius, G.Rudenko, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.72 / 2.79
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	92.008, 98.051, 50.251, 90.00, 90.00, 90.00
R / Rfree (%)	24.9 / 30

The structure of Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Chlorine atom in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal (pdb code 5vpd). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal, PDB code: 5vpd:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl301 b:57.0 occ:1.00 HD11 C:LEU183 3.2 31.8 1.0 HB3 C:LEU179 3.8 82.5 1.0 OE2 D:GLU297 3.8 28.6 1.0 HD23 C:LEU179 3.9 0.1 1.0 HD21 C:LEU183 3.9 58.3 1.0 HG C:LEU183 4.0 43.8 1.0 CD1 C:LEU183 4.1 26.5 1.0 HG23 D:ILE293 4.3 73.0 1.0 HD12 C:LEU183 4.3 31.8 1.0 CG C:LEU183 4.4 36.5 1.0 HG21 D:ILE293 4.5 73.0 1.0 HD13 C:LEU179 4.6 0.1 1.0 HA C:LEU179 4.6 69.7 1.0 CD2 C:LEU183 4.6 48.6 1.0 CB C:LEU179 4.7 68.8 1.0 CD2 C:LEU179 4.8 0.9 1.0 HD13 C:LEU183 4.8 31.8 1.0 CG2 D:ILE293 4.8 60.8 1.0 HG2 D:GLU297 4.9 46.8 1.0 CD D:GLU297 4.9 38.2 1.0

Chlorine binding site 2 out of 3 in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl302 b:58.5 occ:1.00 HB3 D:LYS284 3.8 46.1 1.0 HA C:ALA169 4.0 87.0 1.0 HA D:CYS285 4.0 29.3 1.0 HB2 C:ALA169 4.2 74.5 1.0 HB3 A:ASP188 4.2 43.8 1.0 HB2 D:LYS284 4.4 46.1 1.0 CB D:LYS284 4.6 38.4 1.0 HB2 C:CYS172 4.6 44.7 1.0 HD3 D:LYS284 4.6 86.6 1.0 N D:CYS285 4.7 25.1 1.0 HB2 D:CYS285 4.7 29.4 1.0 HB3 C:CYS172 4.7 44.7 1.0 HB1 C:ALA169 4.7 74.5 1.0 CA D:CYS285 4.8 24.4 1.0 CB C:ALA169 4.8 62.1 1.0 SG C:CYS172 4.8 38.0 1.0 CA C:ALA169 4.8 72.5 1.0 H D:CYS285 4.8 30.1 1.0 C D:LYS284 4.9 25.6 1.0 CB C:CYS172 4.9 37.3 1.0

Chlorine binding site 3 out of 3 in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- III Crystal within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl303 b:90.5 occ:1.00 HH12 C:ARG210 3.4 68.7 1.0 HH22 C:ARG210 3.8 0.3 1.0 NH1 C:ARG210 4.3 57.2 1.0 HG11 D:VAL328 4.4 32.2 1.0 NH2 C:ARG210 4.6 0.5 1.0 HD21 C:LEU211 4.8 45.5 1.0 HH11 C:ARG210 4.9 68.7 1.0 CZ C:ARG210 4.9 93.2 1.0 HE2 D:LYS325 5.0 72.5 1.0

Z.Yin, M.Machius, E.J.Nestler, G.Rudenko. Activator Protein-1: Redox Switch Controlling Structure and Dna-Binding. Nucleic Acids Res. V. 45 11425 2017.
ISSN: ESSN 1362-4962
PubMed: 28981703
DOI: 10.1093/NAR/GKX795