Cadmium in PDB 2w0o: Horse Spleen Apoferritin

The structure of Horse Spleen Apoferritin, PDB code: 2w0o was solved by N.De Val, J.P.Declercq, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	104.83 / 1.50
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	182.000, 182.000, 182.000, 90.00, 90.00, 90.00
R / Rfree (%)	20.4 / 23.6

The binding sites of Cadmium atom in the Horse Spleen Apoferritin (pdb code 2w0o). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 7 binding sites of Cadmium where determined in the Horse Spleen Apoferritin, PDB code: 2w0o:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7;

Cadmium binding site 1 out of 7 in the Horse Spleen Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Horse Spleen Apoferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1173 b:24.2 occ:0.50 OD1 A:ASP80 2.4 15.5 1.0 OD2 A:ASP80 2.5 28.2 1.0 CG A:ASP80 2.8 18.1 1.0 CB A:ASP80 4.4 17.4 1.0

Cadmium binding site 2 out of 7 in the Horse Spleen Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Horse Spleen Apoferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1174 b:68.8 occ:0.33 OE1 A:GLU130 2.5 41.1 1.0 CD A:GLU130 3.4 38.2 1.0 OE2 A:GLU130 3.6 40.1 1.0 O A:HOH2186 4.2 29.6 0.3 O A:HOH2187 4.2 63.4 1.0 CG A:GLU130 4.8 37.4 1.0

Cadmium binding site 3 out of 7 in the Horse Spleen Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Horse Spleen Apoferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1175 b:53.2 occ:1.00 OE2 A:GLU60 2.3 29.8 1.0 OE2 A:GLU56 2.4 33.9 1.0 OE1 A:GLU60 2.6 30.1 1.0 CD A:GLU60 2.8 27.4 1.0 OE2 A:GLU57 2.8 31.7 1.0 CD A:GLU56 3.4 32.2 1.0 CG A:GLU56 3.7 22.9 1.0 CD A:GLU57 3.9 30.2 1.0 O A:HOH2099 4.0 41.0 1.0 OE1 A:GLU57 4.2 32.9 1.0 CG A:GLU60 4.3 21.2 1.0 OE1 A:GLU56 4.6 34.4 1.0 O A:HOH2107 4.6 50.0 1.0 CB A:GLU56 5.0 17.3 1.0 CD A:CD1177 5.0 98.8 1.0

Cadmium binding site 4 out of 7 in the Horse Spleen Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Horse Spleen Apoferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1176 b:61.9 occ:1.00 OE1 A:GLU11 2.4 23.0 1.0 O A:HOH2180 2.6 50.1 1.0 OE2 A:GLU11 2.6 29.5 1.0 CD A:GLU11 2.9 28.0 1.0 O A:HOH2027 2.9 33.3 1.0 OG1 A:THR10 3.9 24.7 1.0 O A:HOH2012 3.9 47.2 1.0 O A:HOH2032 4.2 54.3 1.0 CG A:GLU11 4.4 22.8 1.0 CB A:SER9 4.5 19.2 1.0 OE1 A:GLN120 4.6 32.3 1.0 N A:THR10 4.7 19.3 1.0 NE2 A:GLN120 4.8 32.6 1.0 N A:GLU11 5.0 18.2 1.0

Cadmium binding site 5 out of 7 in the Horse Spleen Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Horse Spleen Apoferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1177 b:98.8 occ:1.00 OE1 A:GLU56 2.5 34.4 1.0 OE1 A:GLU53 3.0 35.4 1.0 OE2 A:GLU56 3.1 33.9 1.0 CD A:GLU56 3.1 32.2 1.0 OE2 A:GLU53 3.2 36.1 1.0 CD A:GLU53 3.5 32.2 1.0 O A:HOH2099 4.1 41.0 1.0 CG A:GLU56 4.6 22.9 1.0 CD A:CD1175 5.0 53.2 1.0

Cadmium binding site 6 out of 7 in the Horse Spleen Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Horse Spleen Apoferritin within 5.0Å range:

Cadmium binding site 7 out of 7 in the Horse Spleen Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Horse Spleen Apoferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1179 b:24.4 occ:0.20 NZ A:LYS142 4.1 14.8 1.0 O A:HOH2196 4.4 26.3 1.0 O A:HOH2197 4.7 31.7 1.0 OD2 A:ASP146 4.8 18.3 1.0

N.De Val, J.P.Declercq, C.K.Lim, R.R.Crichton. Structural Analysis of Haemin Demetallation By L-Chain Apoferritins J.Inorg.Biochem. V. 112 77 2012.
ISSN: ISSN 0162-0134
PubMed: 22561545
DOI: 10.1016/J.JINORGBIO.2012.02.031