Cadmium in PDB 9e6x: Crystal Structure of Ferritin

The structure of Crystal Structure of Ferritin, PDB code: 9e6x was solved by Q.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.79 / 2.50
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	182.172, 182.172, 182.172, 90, 90, 90
R / Rfree (%)	19.6 / 25.6

The structure of Crystal Structure of Ferritin also contains other interesting chemical elements:

Iron

(Fe)

1 atom

The binding sites of Cadmium atom in the Crystal Structure of Ferritin (pdb code 9e6x). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 6 binding sites of Cadmium where determined in the Crystal Structure of Ferritin, PDB code: 9e6x:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6;

Cadmium binding site 1 out of 6 in the Crystal Structure of Ferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of Ferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd201 b:167.4 occ:1.00 O A:ASN70 3.0 39.6 1.0 NH1 A:ARG75 3.3 56.8 1.0 C A:ASN70 3.9 42.4 1.0 CA A:GLY73 4.0 50.4 1.0 CA A:ASN70 4.1 46.8 1.0 CD1 A:ILE4 4.3 49.2 1.0 CZ A:ARG75 4.3 67.9 1.0 N A:GLY73 4.4 46.3 1.0 CB A:ASN70 4.4 44.3 1.0 NH2 A:ARG75 4.5 65.4 1.0 OD1 A:ASN70 4.5 45.7 1.0 CG A:ASN70 4.6 45.3 1.0 O A:GLY74 4.6 52.2 1.0 C A:GLY73 4.7 51.0 1.0 CG1 A:ILE4 4.7 52.9 1.0 OG A:SER2 5.0 58.6 1.0

Cadmium binding site 2 out of 6 in the Crystal Structure of Ferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of Ferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd202 b:56.8 occ:0.50 OD2 A:ASP80 2.5 46.3 1.0 OD1 A:ASP80 2.7 53.4 1.0 CG A:ASP80 3.0 50.1 1.0 CB A:ASP80 4.5 47.5 1.0

Cadmium binding site 3 out of 6 in the Crystal Structure of Ferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Crystal Structure of Ferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd203 b:150.0 occ:1.00 OE2 A:GLU45 3.0 98.6 1.0 SG A:CYS48 3.2 54.0 1.0 OD1 A:ASP38 3.2 56.1 1.0 CG A:ASP38 3.4 53.0 1.0 CB A:ASP38 3.7 49.4 1.0 CD A:GLU45 3.8 99.7 1.0 CB A:CYS48 3.9 48.0 1.0 OE1 A:GLU45 4.0 96.7 1.0 OD2 A:ASP38 4.0 55.3 1.0 CA A:ASP38 4.3 46.2 1.0 CA A:GLU45 4.9 47.3 1.0 O A:GLU45 4.9 43.7 1.0

Cadmium binding site 4 out of 6 in the Crystal Structure of Ferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Crystal Structure of Ferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd204 b:101.0 occ:0.33 O A:HOH305 2.7 43.6 1.0 OE1 A:GLU130 2.8 76.6 1.0 OE2 A:GLU130 3.3 63.4 1.0 CD A:GLU130 3.5 67.1 1.0 CD A:CD206 3.6 166.5 0.3 CD A:CD205 4.0 132.3 1.0 CG A:GLU130 4.9 60.0 1.0

Cadmium binding site 5 out of 6 in the Crystal Structure of Ferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Crystal Structure of Ferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd205 b:132.3 occ:1.00 OE2 A:GLU130 2.9 63.4 1.0 NE2 A:HIS114 3.1 58.2 1.0 CE1 A:HIS114 3.1 56.4 1.0 O A:HOH305 3.5 43.6 1.0 CB A:CYS126 3.7 53.1 1.0 CD A:CD204 4.0 101.0 0.3 SG A:CYS126 4.0 73.0 1.0 CD A:GLU130 4.1 67.1 1.0 CD2 A:HIS114 4.4 52.1 1.0 ND1 A:HIS114 4.4 55.8 1.0 OE1 A:GLU130 4.7 76.6 1.0 CA A:CYS126 4.9 45.9 1.0

Cadmium binding site 6 out of 6 in the Crystal Structure of Ferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Crystal Structure of Ferritin within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd206 b:166.5 occ:0.33 OE1 A:GLU130 3.3 76.6 1.0 CD A:CD204 3.6 101.0 0.3 OD2 A:ASP127 4.3 73.1 1.0 CD A:GLU130 4.5 67.1 1.0 CB A:GLU130 4.8 62.0 1.0

Q.Huang, Q.Huang. N/A N/A.