Calcium in PDB 6l9z: 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X

The structure of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X, PDB code: 6l9z was solved by Z.Adhireksan, D.Sharma, P.L.Lee, C.A.Davey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	213.83 / 2.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	103.5, 101.41, 215.67, 90, 97.48, 90
R / Rfree (%)	20.4 / 25.6

The structure of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X also contains other interesting chemical elements:

Potassium	(K)	10 atoms
Chlorine	(Cl)	8 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 65;

Binding sites:

The binding sites of Calcium atom in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X (pdb code 6l9z). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 65 binding sites of Calcium where determined in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X, PDB code: 6l9z:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca201 b:87.3 occ:1.00 O C:HOH310 2.5 60.1 1.0 O D:HOH306 3.1 63.6 1.0 CG2 D:VAL48 4.4 68.4 1.0 CB C:ALA60 4.7 43.5 1.0 OE1 C:GLU64 4.9 67.2 1.0

Calcium binding site 2 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca202 b:96.1 occ:1.00 O D:HOH305 3.1 59.2 1.0 O C:HOH308 3.4 60.4 1.0 OE1 D:GLU113 3.6 65.9 1.0 OE2 C:GLU56 3.8 56.8 1.0 CD D:GLU113 4.0 58.8 1.0 CG D:GLU113 4.1 54.1 1.0 CG C:GLU56 4.1 51.2 1.0 CD C:GLU56 4.1 51.3 1.0 N C:TYR57 4.2 43.4 1.0 O C:ALA53 4.2 45.9 1.0 CB C:GLU56 4.3 49.1 1.0 CB D:GLU113 4.3 52.9 1.0 CA C:TYR57 4.4 44.8 1.0 CD2 C:LEU23 4.6 50.3 1.0 C C:GLU56 4.6 47.8 1.0 CB C:TYR57 4.6 51.0 1.0 OE2 D:GLU113 4.9 66.9 1.0 OE1 C:GLU56 4.9 51.7 1.0

Calcium binding site 3 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca203 b:87.4 occ:1.00 OE1 C:GLU92 2.8 73.8 1.0 O C:HOH309 2.9 54.1 1.0 CD C:GLU92 3.8 69.5 1.0 CD1 D:LEU106 4.0 67.4 1.0 CB D:GLU105 4.1 71.3 1.0 CB C:GLU92 4.2 57.1 1.0 CG C:GLU92 4.3 62.6 1.0 CG D:GLU105 4.3 80.4 1.0 OD2 C:ASP90 4.4 66.0 1.0 OD1 C:ASP90 4.4 63.7 1.0 N D:LEU106 4.4 63.0 1.0 C D:GLU105 4.6 63.6 1.0 OE2 C:GLU92 4.7 81.1 1.0 CG C:ASP90 4.8 61.1 1.0 CA D:GLU105 4.9 62.3 1.0 CA D:LEU106 4.9 59.0 1.0 CB D:LEU106 4.9 60.0 1.0 CG D:LEU106 4.9 64.3 1.0 O D:GLU105 5.0 64.4 1.0

Calcium binding site 4 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca201 b:80.8 occ:1.00 O D:VAL48 2.6 66.9 1.0 O C:HOH304 2.8 60.4 1.0 OE1 C:GLU64 3.4 67.2 1.0 C D:VAL48 3.7 62.6 1.0 CA D:VAL48 4.1 65.6 1.0 CD C:GLU64 4.4 67.4 1.0 OE2 C:GLU64 4.5 71.8 1.0 O D:GLN47 4.7 73.2 1.0 ND1 D:HIS49 4.8 63.2 1.0 CE1 D:HIS49 4.8 57.6 1.0 N D:HIS49 4.8 63.4 1.0 CG1 D:VAL48 4.9 68.0 1.0 CB D:VAL48 4.9 66.3 1.0

Calcium binding site 5 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca201 b:97.8 occ:1.00 OD1 G:ASP72 2.6 79.0 1.0 CG G:ASP72 3.7 79.6 1.0 O G:ASN68 3.7 56.5 1.0 N G:ASP72 4.1 67.7 1.0 CB G:ARG71 4.3 73.9 1.0 OD2 G:ASP72 4.3 88.1 1.0 C G:ASN68 4.5 52.6 1.0 CA G:ASP72 4.6 71.4 1.0 CA G:ASN68 4.6 53.9 1.0 C G:ARG71 4.6 68.7 1.0 CB G:ASN68 4.7 52.2 1.0 CB G:ASP72 4.7 74.3 1.0

Calcium binding site 6 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca202 b:117.0 occ:1.00 O G:HOH304 2.6 70.7 1.0 OE1 G:GLU64 4.6 88.5 1.0 OE2 G:GLU61 4.6 79.1 1.0 CE1 G:TYR57 4.8 53.4 1.0 CD G:GLU61 5.0 77.1 1.0

Calcium binding site 7 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca203 b:102.8 occ:1.00 OD2 G:ASP90 2.9 58.9 1.0 CG G:ASP90 3.9 54.8 1.0 OE1 G:GLU61 4.1 77.8 1.0 OD1 G:ASP90 4.2 56.9 1.0 CD G:GLU61 4.3 77.1 1.0 OE2 G:GLU61 4.4 79.1 1.0 CD1 H:LEU106 4.5 50.4 1.0 CD1 G:LEU65 4.8 53.9 1.0 CG G:GLU61 5.0 71.6 1.0

Calcium binding site 8 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ I:Ca401 b:110.6 occ:1.00 O I:HOH506 2.5 80.5 1.0 O I:HOH545 3.0 74.9 1.0 O6 I:DG112 3.5 90.8 1.0 N4 J:DC227 4.6 98.7 1.0 N7 I:DA111 4.7 79.9 1.0 C6 I:DG112 4.7 85.1 1.0

Calcium binding site 9 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ I:Ca402 b:103.7 occ:1.00 O I:HOH502 2.8 55.8 1.0 O I:HOH538 3.4 68.9 1.0 O J:HOH541 3.6 73.6 1.0 N6 I:DA114 4.3 81.6 1.0 N7 I:DA114 4.5 85.7 1.0 N4 J:DC224 4.6 139.1 1.0 O6 I:DG115 4.7 114.6 1.0

Calcium binding site 10 out of 65 in the 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of 338 Bp Di-Nucleosome Assembled with Linker Histone H1.X within 5.0Å range: probe atom residue distance (Å) B Occ I:Ca403 b:102.6 occ:1.00 O J:HOH511 2.4 91.3 1.0 O I:HOH511 2.7 69.5 1.0 O J:HOH545 2.7 73.2 1.0 O J:HOH525 4.1 66.5 1.0 N7 J:DA220 4.4 89.5 1.0 N4 I:DC118 4.8 106.7 1.0 O6 I:DG117 4.9 106.8 1.0 O6 J:DG221 4.9 108.6 1.0 N7 I:DG117 4.9 104.9 1.0 N6 J:DA220 5.0 88.3 1.0

D.Sharma, C.A.Davey, Z.Adhireksan. Dinucleosome 338 Bp with Linker Histone H1.X To Be Published.