Chlorine in PDB 5ay8: Crystal Structure of Human Nucleosome Containing H3.Y

The structure of Crystal Structure of Human Nucleosome Containing H3.Y, PDB code: 5ay8 was solved by T.Kujirai, N.Horikoshi, K.Sato, K.Maehara, S.Machida, A.Osakabe, H.Kimura, Y.Ohkawa, H.Kurumizaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.95 / 2.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	101.522, 101.922, 175.736, 90.00, 90.00, 90.00
R / Rfree (%)	20.1 / 24.9

The structure of Crystal Structure of Human Nucleosome Containing H3.Y also contains other interesting chemical elements:

Manganese

(Mn)

8 atoms

The binding sites of Chlorine atom in the Crystal Structure of Human Nucleosome Containing H3.Y (pdb code 5ay8). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Crystal Structure of Human Nucleosome Containing H3.Y, PDB code: 5ay8:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in the Crystal Structure of Human Nucleosome Containing H3.Y


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Human Nucleosome Containing H3.Y within 5.0Å range: probe atom residue distance (Å) B Occ J:Cl305 b:72.7 occ:1.00 N7 J:DG290 2.8 60.7 1.0 C8 J:DG290 3.3 60.6 1.0 C5 J:DG290 3.9 60.1 1.0 OP2 J:DG290 4.3 49.1 1.0 O6 J:DG290 4.5 71.9 1.0 C6 J:DG290 4.6 61.6 1.0 N9 J:DG290 4.6 65.7 1.0 C2' J:DT289 4.8 52.0 1.0 C4 J:DG290 4.9 66.2 1.0 N6 J:DA291 4.9 73.0 1.0

Chlorine binding site 2 out of 2 in the Crystal Structure of Human Nucleosome Containing H3.Y


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Human Nucleosome Containing H3.Y within 5.0Å range: probe atom residue distance (Å) B Occ J:Cl306 b:75.7 occ:1.00 N7 J:DA218 3.4 58.7 1.0 C8 J:DA218 4.1 61.3 1.0 C8 J:DG217 4.2 56.6 1.0 N7 J:DG217 4.5 47.9 1.0 C5 J:DA218 4.5 61.8 1.0 N6 J:DA218 4.7 55.3 1.0 C2' J:DG217 4.9 58.0 1.0 N9 J:DG217 4.9 53.8 1.0

T.Kujirai, N.Horikoshi, K.Sato, K.Maehara, S.Machida, A.Osakabe, H.Kimura, Y.Ohkawa, H.Kurumizaka. Structure and Function of Human Histone H3.Y Nucleosome Nucleic Acids Res. V. 44 6127 2016.
ISSN: ESSN 1362-4962
PubMed: 27016736
DOI: 10.1093/NAR/GKW202