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

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

Resolution Low / High (Å)	44.04 / 2.50
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	111.177, 49.949, 97.746, 90.00, 122.94, 90.00
R / Rfree (%)	25.1 / 28.9

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

Sodium

(Na)

3 atoms

The binding sites of Chlorine atom in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- II Crystal (pdb code 5vpc). 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- II Crystal, PDB code: 5vpc:
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- II 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- II Crystal within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl402 b:60.4 occ:1.00 O B:HOH507 3.1 27.1 1.0 HB3 B:LEU290 3.2 33.1 1.0 HD22 B:LEU290 3.6 31.3 1.0 HD13 B:LEU290 3.6 48.2 1.0 O B:HOH509 4.1 44.2 1.0 CB B:LEU290 4.1 27.1 1.0 HB2 B:SER294 4.4 62.1 1.0 CD2 B:LEU290 4.4 25.6 1.0 CD1 B:LEU290 4.5 39.7 1.0 CG B:LEU290 4.6 42.0 1.0 HB2 B:LEU290 4.6 33.1 1.0 O B:LEU290 4.7 41.9 1.0 HD23 B:LEU290 4.9 31.3 1.0 HA B:LEU290 4.9 38.4 1.0 CA B:LEU290 5.0 31.6 1.0 C B:LEU290 5.0 52.0 1.0 HD12 B:LEU290 5.0 48.2 1.0

Chlorine binding site 2 out of 3 in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- II 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- II Crystal within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl403 b:72.1 occ:1.00 HH11 B:ARG292 2.4 0.5 1.0 HG2 B:LYS289 2.7 63.3 1.0 HD3 B:ARG292 2.8 0.8 1.0 HH11 A:ARG173 3.1 0.1 1.0 HD2 B:ARG292 3.1 0.8 1.0 HD3 A:ARG173 3.3 75.5 1.0 NH1 B:ARG292 3.3 93.3 1.0 HA B:LYS289 3.4 31.9 1.0 NH1 A:ARG173 3.4 90.5 1.0 CD B:ARG292 3.4 97.7 1.0 CG B:LYS289 3.6 52.3 1.0 HH12 A:ARG173 3.6 0.1 1.0 HG3 B:LYS289 3.6 63.3 1.0 HZ1 B:LYS289 3.6 0.8 1.0 HH12 B:ARG292 3.7 0.5 1.0 HG21 A:THR180 3.8 54.3 1.0 CZ A:ARG173 4.0 93.5 1.0 CD A:ARG173 4.1 62.5 1.0 HB3 B:ARG292 4.1 46.4 1.0 HA A:ARG173 4.2 0.8 1.0 HG2 B:ARG288 4.2 84.5 1.0 HG1 A:THR180 4.2 94.1 1.0 CZ B:ARG292 4.2 98.9 1.0 CA B:LYS289 4.2 26.2 1.0 NE B:ARG292 4.2 98.7 1.0 NE A:ARG173 4.3 85.0 1.0 HB2 B:ARG292 4.3 46.4 1.0 HE3 B:LYS289 4.3 93.3 1.0 HD2 A:ARG173 4.4 75.5 1.0 CB B:LYS289 4.4 38.7 1.0 NZ B:LYS289 4.5 88.6 1.0 CB B:ARG292 4.5 38.2 1.0 CG B:ARG292 4.6 83.0 1.0 CD B:LYS289 4.6 83.6 1.0 HB3 B:LYS289 4.6 47.0 1.0 CE B:LYS289 4.7 77.3 1.0 CG2 A:THR180 4.8 44.8 1.0 HD2 B:LYS289 4.8 0.9 1.0 NH2 A:ARG173 4.8 79.4 1.0 HZ3 B:LYS289 4.9 0.8 1.0 N B:LYS289 4.9 49.5 1.0 HE A:ARG173 4.9 0.6 1.0 OG1 A:THR180 5.0 77.9 1.0 HH22 A:ARG173 5.0 95.9 1.0

Chlorine binding site 3 out of 3 in the Transcription Factor Fosb/Jund Bzip Domain in Its Oxidized Form, Type- II 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- II Crystal within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl404 b:71.0 occ:1.00 HE B:ARG279 2.6 63.4 1.0 HH21 B:ARG279 2.8 78.9 1.0 HD13 B:LEU276 3.0 24.3 1.0 HB2 B:LEU276 3.2 21.0 1.0 HA B:LEU276 3.2 28.2 1.0 NE B:ARG279 3.4 52.4 1.0 NH2 B:ARG279 3.6 65.3 1.0 HG3 B:ARG275 3.8 55.9 1.0 CD1 B:LEU276 3.8 19.8 1.0 HD12 B:LEU276 3.8 24.3 1.0 CA B:LEU276 3.8 23.1 1.0 CB B:LEU276 3.8 19.8 1.0 CZ B:ARG279 4.0 48.7 1.0 HG2 B:ARG275 4.0 55.9 1.0 N B:LEU276 4.0 23.6 1.0 H B:LEU276 4.1 28.9 1.0 HG3 B:ARG279 4.2 23.0 1.0 HB3 B:ARG275 4.2 63.3 1.0 HH22 B:ARG279 4.3 78.9 1.0 CG B:ARG275 4.3 46.1 1.0 CG B:LEU276 4.4 47.9 1.0 HD22 B:LEU276 4.5 40.9 1.0 C B:ARG275 4.5 49.1 1.0 CD B:ARG279 4.5 33.8 1.0 HD11 B:LEU276 4.5 24.3 1.0 HB3 B:LEU276 4.7 21.0 1.0 HD3 B:ARG279 4.7 41.2 1.0 O B:GLU272 4.7 40.3 1.0 CB B:ARG275 4.8 52.2 1.0 HB2 B:ARG279 4.8 28.3 1.0 CG B:ARG279 4.8 18.7 1.0 O B:ARG275 4.8 26.6 1.0 CD2 B:LEU276 5.0 33.6 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