Cadmium in PDB 3f36: Apoferritin: Complex with 2-Isopropylphenol

The structure of Apoferritin: Complex with 2-Isopropylphenol, PDB code: 3f36 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)	20.00 / 1.70
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	182.366, 182.366, 182.366, 90.00, 90.00, 90.00
R / Rfree (%)	18.5 / 21

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 11;

Binding sites:

The binding sites of Cadmium atom in the Apoferritin: Complex with 2-Isopropylphenol (pdb code 3f36). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 11 binding sites of Cadmium where determined in the Apoferritin: Complex with 2-Isopropylphenol, PDB code: 3f36:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1001 b:25.5 occ:0.25 CD A:CD1001 0.0 25.5 0.2 CD A:CD1001 1.3 25.9 0.2 O A:HOH325 1.5 38.2 0.5 OD2 A:ASP80 2.7 41.5 1.0 OD1 A:ASP80 2.8 34.6 1.0 CG A:ASP80 3.2 33.1 1.0 O A:HOH226 4.3 39.1 1.0 CB A:ASP80 4.6 30.8 1.0

Cadmium binding site 2 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1001 b:25.9 occ:0.25 CD A:CD1001 0.0 25.9 0.2 CD A:CD1001 1.3 25.5 0.2 OD2 A:ASP80 2.1 41.5 1.0 O A:HOH325 2.6 38.2 0.5 CG A:ASP80 2.9 33.1 1.0 OD1 A:ASP80 2.9 34.6 1.0 CB A:ASP80 4.3 30.8 1.0 O A:HOH226 4.9 39.1 1.0

Cadmium binding site 3 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1002 b:58.3 occ:0.16 CD A:CD1003 1.6 38.7 0.2 OE1 A:GLU130 2.5 43.0 1.0 CD A:GLU130 3.4 41.1 1.0 OE2 A:GLU130 3.5 39.2 1.0 CD A:CD1004 4.4 39.9 0.1 CG A:GLU130 4.8 37.0 1.0 O A:HOH236 4.9 48.6 1.0

Cadmium binding site 4 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1003 b:38.7 occ:0.16 CD A:CD1002 1.6 58.3 0.2 OE1 A:GLU130 2.5 43.0 1.0 OE2 A:GLU130 2.6 39.2 1.0 CD A:GLU130 2.9 41.1 1.0 O A:HOH236 3.9 48.6 1.0 CG A:GLU130 4.3 37.0 1.0 NE2 A:HIS114 5.0 32.4 1.0

Cadmium binding site 5 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1004 b:39.9 occ:0.15 O A:HOH281 2.4 31.2 0.3 OD2 A:ASP127 3.1 45.6 1.0 OG A:SER131 4.2 43.9 1.0 OE1 A:GLU130 4.3 43.0 1.0 CD A:CD1002 4.4 58.3 0.2 CG A:ASP127 4.4 39.6 1.0

Cadmium binding site 6 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1005 b:52.8 occ:0.33 O A:HOH318 1.9 57.4 1.0 OE2 A:GLU11 2.6 35.2 1.0 OE1 A:GLU11 2.6 40.9 1.0 O A:HOH252 2.9 41.9 1.0 CD A:GLU11 3.0 39.6 1.0 OG1 A:THR10 3.9 35.4 1.0 CG A:GLU11 4.5 32.5 1.0 CB A:SER9 4.7 29.6 1.0 NE2 A:GLN120 4.8 37.8 1.0 N A:THR10 4.8 29.1 1.0 OE1 A:GLN120 4.8 43.0 1.0

Cadmium binding site 7 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1006 b:44.4 occ:0.25 CD A:CD1006 0.0 44.4 0.2 CD A:CD1006 1.6 44.2 0.2 O A:HOH305 1.6 43.2 1.0 OE2 A:GLU57 2.4 49.0 1.0 OE2 A:GLU60 2.5 42.6 1.0 OE1 A:GLU60 3.0 43.2 1.0 CD A:GLU60 3.1 40.1 1.0 OE2 A:GLU56 3.4 49.5 1.0 CD A:GLU57 3.4 44.5 1.0 OE1 A:GLU57 3.7 48.4 1.0 CD A:GLU56 3.9 44.9 1.0 CG A:GLU56 4.1 35.2 1.0 OE1 A:GLU53 4.2 39.1 0.5 CG A:GLU60 4.6 32.5 1.0 OE1 A:GLU56 4.7 46.6 1.0 CG A:GLU57 4.8 34.1 1.0

Cadmium binding site 8 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1006 b:44.2 occ:0.25 CD A:CD1006 0.0 44.2 0.2 CD A:CD1006 1.6 44.4 0.2 OE1 A:GLU60 2.2 43.2 1.0 OE2 A:GLU56 2.2 49.5 1.0 CD A:GLU60 2.9 40.1 1.0 OE2 A:GLU60 2.9 42.6 1.0 O A:HOH305 3.1 43.2 1.0 CD A:GLU56 3.1 44.9 1.0 CG A:GLU56 3.6 35.2 1.0 OE2 A:GLU57 3.7 49.0 1.0 OE1 A:GLU56 4.1 46.6 1.0 CG A:GLU60 4.4 32.5 1.0 CD A:CD1007 4.5 79.6 0.3 OE1 A:GLU53 4.7 39.1 0.5 CD A:GLU57 4.8 44.5 1.0 CB A:GLU56 5.0 29.1 1.0

Cadmium binding site 9 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1007 b:58.1 occ:0.33 CD A:CD1007 0.0 58.1 0.3 OE1 A:GLU53 2.3 36.5 0.5 OE1 A:GLU56 2.4 46.6 1.0 CD A:CD1007 2.4 79.6 0.3 OE2 A:GLU53 2.6 36.8 0.5 CD A:GLU53 2.8 34.4 0.5 CD A:GLU56 3.3 44.9 1.0 OE2 A:GLU56 3.5 49.5 1.0 OE1 A:GLU53 3.6 39.1 0.5 CG A:GLU53 4.0 33.8 0.5 CD A:GLU53 4.1 37.1 0.5 CG A:GLU53 4.3 31.4 0.5 CG A:GLU56 4.7 35.2 1.0 CB A:GLU56 5.0 29.1 1.0

Cadmium binding site 10 out of 11 in the Apoferritin: Complex with 2-Isopropylphenol


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of Apoferritin: Complex with 2-Isopropylphenol within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1007 b:79.6 occ:0.33 CD A:CD1007 0.0 79.6 0.3 CD A:CD1007 2.4 58.1 0.3 OE2 A:GLU56 2.7 49.5 1.0 OE1 A:GLU56 2.8 46.6 1.0 CD A:GLU56 3.1 44.9 1.0 CD A:CD1006 4.5 44.2 0.2 CG A:GLU56 4.5 35.2 1.0 OE1 A:GLU53 4.6 36.5 0.5 OE2 A:GLU53 4.6 36.8 0.5

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