Cadmium in PDB 3f32: Horse Spleen Apoferritin

The structure of Horse Spleen Apoferritin, PDB code: 3f32 was solved by L.S.Vedula, N.J.Economou, M.J.Rossi, R.G.Eckenhoff, P.J.Loll, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.97 / 1.70
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	181.598, 181.598, 181.598, 90.00, 90.00, 90.00
R / Rfree (%)	17.8 / 20.9

The binding sites of Cadmium atom in the Horse Spleen Apoferritin (pdb code 3f32). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 6 binding sites of Cadmium where determined in the Horse Spleen Apoferritin, PDB code: 3f32:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6;

Cadmium binding site 1 out of 6 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:Cd1001 b:25.2 occ:0.25 CD A:CD1001 0.0 25.2 0.2 CD A:CD1001 1.2 14.1 0.2 OD2 A:ASP80 1.7 27.3 1.0 CG A:ASP80 2.4 23.6 1.0 OD1 A:ASP80 2.4 21.6 1.0 O A:HOH201 3.2 30.9 1.0 CB A:ASP80 3.8 21.7 1.0 O A:HOH227 4.3 25.1 1.0 CA A:ASP80 4.9 21.2 1.0

Cadmium binding site 2 out of 6 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:Cd1001 b:14.1 occ:0.25 CD A:CD1001 0.0 14.1 0.2 CD A:CD1001 1.2 25.2 0.2 O A:HOH201 2.5 30.9 1.0 OD2 A:ASP80 2.7 27.3 1.0 OD1 A:ASP80 2.8 21.6 1.0 CG A:ASP80 3.2 23.6 1.0 O A:HOH227 4.6 25.1 1.0 CB A:ASP80 4.6 21.7 1.0

Cadmium binding site 3 out of 6 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:Cd1002 b:88.5 occ:0.33 O A:HOH192 2.2 47.6 1.0 OE1 A:GLU130 2.7 34.2 1.0 CD A:GLU130 3.5 31.6 1.0 OE2 A:GLU130 3.5 33.5 1.0 CD A:CD1003 4.7 42.9 0.2 CG A:GLU130 4.9 28.9 1.0

Cadmium binding site 4 out of 6 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:Cd1003 b:42.9 occ:0.16 OD2 A:ASP127 3.3 36.0 1.0 OG A:SER131 4.1 32.3 0.5 OE1 A:GLU130 4.4 34.2 1.0 CG A:ASP127 4.5 30.9 1.0 CD A:CD1002 4.7 88.5 0.3

Cadmium binding site 5 out of 6 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:Cd1004 b:0.5 occ:0.65 OE1 A:GLU56 2.5 37.2 1.0 OE1 A:GLU53 2.6 27.1 0.5 OE2 A:GLU53 2.7 26.8 0.5 CD A:GLU53 3.0 25.1 0.5 CD A:GLU56 3.4 34.1 1.0 OE2 A:GLU56 3.6 39.1 1.0 CG A:GLU53 4.5 21.4 0.5 CG A:GLU53 4.6 21.6 0.5 CG A:GLU56 4.8 25.3 1.0

Cadmium binding site 6 out of 6 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: probe atom residue distance (Å) B Occ A:Cd1005 b:51.6 occ:0.35 O A:HOH185 1.7 28.2 1.0 O A:HOH218 1.8 34.5 1.0 OE2 A:GLU60 2.4 31.9 1.0 OE1 A:GLU60 3.0 35.8 1.0 CD A:GLU60 3.1 31.6 1.0 OE2 A:GLU57 3.3 41.2 1.0 OE2 A:GLU56 3.4 39.1 1.0 CD A:GLU56 3.9 34.1 1.0 CG A:GLU56 4.1 25.3 1.0 CD A:GLU57 4.5 39.0 1.0 CG A:GLU60 4.6 23.7 1.0 OE2 A:GLU53 4.8 25.9 0.5 OE1 A:GLU56 4.8 37.2 1.0

L.S.Vedula, G.Brannigan, N.J.Economou, J.Xi, M.A.Hall, R.Liu, M.J.Rossi, W.P.Dailey, K.C.Grasty, M.L.Klein, R.G.Eckenhoff, P.J.Loll. A Unitary Anesthetic Binding Site at High Resolution. J.Biol.Chem. V. 284 24176 2009.
ISSN: ISSN 0021-9258
PubMed: 19605349
DOI: 10.1074/JBC.M109.017814