Chlorine in PDB 2pyo: Drosophila Nucleosome Core

The structure of Drosophila Nucleosome Core, PDB code: 2pyo was solved by C.R.Clapier, C.Petosa, C.W.Mueller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	500.00 / 2.43
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	106.030, 182.040, 109.420, 90.00, 90.00, 90.00
R / Rfree (%)	22.9 / 26.2

The structure of Drosophila Nucleosome Core also contains other interesting chemical elements:

Manganese

(Mn)

14 atoms

The binding sites of Chlorine atom in the Drosophila Nucleosome Core (pdb code 2pyo). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Drosophila Nucleosome Core, PDB code: 2pyo:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Drosophila Nucleosome Core


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Drosophila Nucleosome Core within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1017 b:73.7 occ:1.00 N A:LYS122 3.2 44.4 1.0 CD A:PRO121 3.4 44.4 1.0 CG A:LYS122 3.4 52.8 1.0 CB A:LYS122 3.6 47.0 1.0 N A:PRO121 3.7 44.4 1.0 CB A:PRO121 3.8 45.1 1.0 CB A:MET120 3.8 47.6 1.0 CD A:LYS122 3.9 54.5 1.0 CA A:LYS122 4.0 45.0 1.0 C A:PRO121 4.1 45.3 1.0 CA A:PRO121 4.1 45.1 1.0 CG A:PRO121 4.1 44.4 1.0 CE A:LYS122 4.3 58.9 1.0 C A:MET120 4.4 43.8 1.0 CA A:MET120 4.7 44.5 1.0 CG A:MET120 4.8 52.4 1.0 SD A:MET120 4.8 58.8 1.0

Chlorine binding site 2 out of 4 in the Drosophila Nucleosome Core


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Drosophila Nucleosome Core within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl1016 b:56.5 occ:1.00 N D:SER88 3.2 44.2 1.0 N C:GLY45 3.4 40.5 1.0 CB D:THR87 3.5 47.6 1.0 CA D:THR87 3.5 45.5 1.0 CA C:GLY45 3.7 40.1 1.0 N C:ALA46 3.8 41.8 1.0 C D:THR87 3.9 45.3 1.0 CG2 D:THR87 3.9 49.0 1.0 C C:GLY43 4.0 48.9 1.0 CA C:GLY43 4.0 49.3 1.0 C C:GLY45 4.1 42.2 1.0 CB D:SER88 4.2 44.4 1.0 O C:GLY43 4.2 48.5 1.0 N C:ALA44 4.3 48.0 1.0 OG D:SER88 4.3 48.3 1.0 CA D:SER88 4.3 43.8 1.0 OP1 J:DA38 4.4 76.7 1.0 C C:ALA44 4.6 43.8 1.0 CA C:ALA46 4.7 40.4 1.0 OG1 D:THR87 4.8 49.9 1.0 O D:ILE86 4.8 44.0 1.0 N D:THR87 4.8 44.7 1.0 N C:GLY43 4.8 50.7 1.0 CB C:ALA46 4.9 38.7 1.0

Chlorine binding site 3 out of 4 in the Drosophila Nucleosome Core


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Drosophila Nucleosome Core within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl1018 b:73.3 occ:1.00 N E:LYS122 3.1 35.7 1.0 CD E:PRO121 3.3 38.4 1.0 N E:PRO121 3.5 37.7 1.0 CB E:PRO121 3.6 37.9 1.0 CB E:MET120 3.6 40.2 1.0 CG E:LYS122 3.7 43.3 1.0 CB E:LYS122 3.7 38.8 1.0 CG E:PRO121 3.9 37.6 1.0 CA E:PRO121 3.9 38.1 1.0 CE E:MET120 3.9 52.0 1.0 C E:PRO121 3.9 37.0 1.0 CA E:LYS122 4.0 39.6 1.0 CE E:LYS122 4.1 48.1 1.0 C E:MET120 4.1 37.2 1.0 CD E:LYS122 4.2 45.9 1.0 CA E:MET120 4.4 38.6 1.0 CG E:MET120 4.6 46.7 1.0 O E:MET120 4.9 36.8 1.0 SD E:MET120 4.9 53.4 1.0

Chlorine binding site 4 out of 4 in the Drosophila Nucleosome Core


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Drosophila Nucleosome Core within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl1015 b:60.0 occ:1.00 N G:GLY45 3.2 51.2 1.0 N H:SER88 3.3 49.4 1.0 CB H:THR87 3.5 47.7 1.0 CA H:THR87 3.6 48.4 1.0 CA G:GLY45 3.6 50.6 1.0 N G:ALA46 3.7 51.4 1.0 C G:GLY43 3.8 56.0 1.0 CA G:GLY43 3.9 55.4 1.0 C H:THR87 3.9 49.7 1.0 OG H:SER88 3.9 53.1 1.0 N G:ALA44 4.0 54.8 1.0 CG2 H:THR87 4.1 45.9 1.0 C G:GLY45 4.1 51.2 1.0 CB H:SER88 4.2 51.4 1.0 O G:GLY43 4.3 56.5 1.0 C G:ALA44 4.3 52.3 1.0 CA H:SER88 4.3 50.2 1.0 OP1 I:DA38 4.6 90.4 1.0 CA G:ALA44 4.7 52.5 1.0 OG1 H:THR87 4.7 48.7 1.0 CA G:ALA46 4.8 50.2 1.0 N G:GLY43 4.8 57.2 1.0 CB G:ALA46 4.9 50.3 1.0 N H:THR87 4.9 48.2 1.0

C.R.Clapier, S.Chakravarthy, C.Petosa, C.Fernandez-Tornero, K.Luger, C.W.Muller. Structure of the Drosophila Nucleosome Core Particle Highlights Evolutionary Constraints on the H2A-H2B Histone Dimer. Proteins V. 71 1 2007.
ISSN: ISSN 0887-3585
PubMed: 17957772
DOI: 10.1002/PROT.21720