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Cadmium in PDB 2bym: Histone Fold Heterodimer of the Chromatin Accessibility Complex

Protein crystallography data

The structure of Histone Fold Heterodimer of the Chromatin Accessibility Complex, PDB code: 2bym was solved by C.Fernandez-Tornero, K.F.Hartlepp, T.Grune, A.Eberharter, P.B.Becker, C.W.Muller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.96 / 2.8
Space group P 4 21 2
Cell size a, b, c (Å), α, β, γ (°) 130.550, 130.550, 59.710, 90.00, 90.00, 90.00
R / Rfree (%) 21.7 / 27.1

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Histone Fold Heterodimer of the Chromatin Accessibility Complex (pdb code 2bym). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 3 binding sites of Cadmium where determined in the Histone Fold Heterodimer of the Chromatin Accessibility Complex, PDB code: 2bym:
Jump to Cadmium binding site number: 1; 2; 3;

Cadmium binding site 1 out of 3 in 2bym

Go back to Cadmium Binding Sites List in 2bym
Cadmium binding site 1 out of 3 in the Histone Fold Heterodimer of the Chromatin Accessibility Complex


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Histone Fold Heterodimer of the Chromatin Accessibility Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd1096

b:87.0
occ:1.00
NE2 D:HIS57 2.5 44.2 1.0
NE2 B:HIS57 2.8 73.0 1.0
CD2 D:HIS57 3.3 42.8 1.0
CE1 D:HIS57 3.5 45.1 1.0
CD2 B:HIS57 3.6 71.2 1.0
CE1 B:HIS57 3.8 72.5 1.0
CG D:HIS57 4.5 43.3 1.0
ND1 D:HIS57 4.6 43.7 1.0
CG B:HIS57 4.8 70.0 1.0
ND1 B:HIS57 4.9 71.8 1.0

Cadmium binding site 2 out of 3 in 2bym

Go back to Cadmium Binding Sites List in 2bym
Cadmium binding site 2 out of 3 in the Histone Fold Heterodimer of the Chromatin Accessibility Complex


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Histone Fold Heterodimer of the Chromatin Accessibility Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd1100

b:29.9
occ:1.00
O C:HOH2005 1.8 22.9 1.0
O C:HOH2008 1.9 31.9 1.0
OE1 C:GLU65 2.2 37.1 1.0
OE2 C:GLU65 2.3 40.6 1.0
CD C:GLU65 2.6 36.8 1.0
O C:HOH2004 3.0 29.3 1.0
NE2 C:GLN81 4.0 49.6 1.0
CG C:GLU65 4.1 35.6 1.0
O C:HOH2006 4.3 12.0 1.0
OE1 C:GLN81 4.6 47.6 1.0
CD C:GLN81 4.7 46.8 1.0
CB C:GLU65 5.0 32.7 1.0

Cadmium binding site 3 out of 3 in 2bym

Go back to Cadmium Binding Sites List in 2bym
Cadmium binding site 3 out of 3 in the Histone Fold Heterodimer of the Chromatin Accessibility Complex


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Histone Fold Heterodimer of the Chromatin Accessibility Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd1098

b:60.6
occ:1.00
O D:HOH2001 2.2 23.5 1.0
NE2 D:HIS61 2.5 48.1 1.0
CE1 D:HIS61 3.3 47.4 1.0
CD2 D:HIS61 3.6 47.7 1.0
OE1 D:GLN59 4.2 34.0 1.0
ND1 D:HIS61 4.5 46.9 1.0
O D:GLN59 4.6 48.5 1.0
CB D:GLN59 4.7 42.2 1.0
CG D:HIS61 4.7 47.7 1.0

Reference:

K.F.Hartlepp, C.Fernandez-Tornero, A.Eberharter, T.Grune, C.W.Muller, P.B.Becker. The Histone Fold Subunits of Drosophila Chrac Facilitate Nucleosome Sliding Through Dynamic Dna Interactions. Mol.Cell.Biol. V. 25 9886 2005.
ISSN: ISSN 0270-7306
PubMed: 16260604
DOI: 10.1128/MCB.25.22.9886-9896.2005
Page generated: Sat Dec 12 08:16:42 2020

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