Cadmium in PDB 1lb3: Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution

The structure of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution, PDB code: 1lb3 was solved by T.Granier, B.Langlois D'estaintot, B.Gallois, J.-M.Chevalier, G.Precigoux, P.Santambrogio, P.Arosio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	14.00 / 1.21
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	180.590, 180.590, 180.590, 90.00, 90.00, 90.00
R / Rfree (%)	13.2 / 16

The binding sites of Cadmium atom in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution (pdb code 1lb3). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 9 binding sites of Cadmium where determined in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution, PDB code: 1lb3:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Cadmium binding site 1 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd717 b:13.9 occ:0.50 OD2 A:ASP84 2.3 19.5 1.0 OD1 A:ASP84 2.5 9.9 1.0 CG A:ASP84 2.8 9.4 1.0 CB A:ASP84 4.2 10.0 1.0 O A:HOH270 4.4 14.6 1.0

Cadmium binding site 2 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd718 b:25.4 occ:0.40 CD A:CD722 1.8 27.4 0.2 OE2 A:GLU64 2.2 24.9 1.0 OE2 A:GLU60 2.2 27.0 0.6 O A:HOH505 2.3 29.7 0.4 O A:HOH506 2.5 30.6 1.0 OE1 A:GLU64 2.7 28.3 1.0 CD A:GLU64 2.8 19.8 1.0 CD A:GLU60 3.3 21.1 0.6 CG A:GLU60 3.6 13.1 0.6 O A:HOH243 4.0 27.0 1.0 CG A:GLU64 4.2 15.1 1.0 OE1 A:GLU60 4.4 30.6 0.6 O A:HOH441 4.6 31.8 1.0 O A:HOH507 4.7 42.6 1.0 OE1 A:GLU61 4.7 23.4 1.0 CB A:GLU60 4.8 10.5 0.4 CB A:GLU60 4.8 10.3 0.6

Cadmium binding site 3 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd722 b:27.4 occ:0.20 CD A:CD718 1.8 25.4 0.4 O A:HOH506 2.2 30.6 1.0 OE1 A:GLU64 2.3 28.3 1.0 O A:HOH505 2.6 29.7 0.4 CD A:GLU64 3.1 19.8 1.0 O A:HOH441 3.1 31.8 1.0 OE2 A:GLU64 3.2 24.9 1.0 OE1 A:GLU61 3.3 23.4 1.0 O A:HOH249 3.7 33.9 1.0 OE2 A:GLU60 4.0 27.0 0.6 CD A:GLU61 4.3 21.9 1.0 O A:HOH243 4.3 27.0 1.0 CG A:GLU64 4.6 15.1 1.0 OE2 A:GLU61 4.7 27.0 1.0 CD A:GLU60 4.9 21.1 0.6 CG A:GLU60 4.9 13.1 0.6

Cadmium binding site 4 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd723 b:28.2 occ:0.20 O A:HOH507 2.0 42.6 1.0 OE1 A:GLU57 2.1 26.0 0.4 OE2 A:GLU57 2.3 29.7 0.4 CD A:GLU57 2.5 22.7 0.4 OE1 A:GLU60 2.7 30.6 0.6 CD A:GLU60 3.4 21.1 0.6 OE2 A:GLU60 3.6 27.0 0.6 CG A:GLU57 4.0 15.5 0.4 O A:HOH243 4.1 27.0 1.0 O A:HOH439 4.1 52.2 1.0 CG A:GLU60 4.5 16.2 0.4 CG A:GLU60 4.7 13.1 0.6 O A:HOH505 4.8 29.7 0.4 CB A:GLU57 4.8 8.8 0.4 CG A:GLU57 4.8 11.7 0.6 CB A:GLU60 4.9 10.3 0.6 CB A:GLU60 5.0 10.5 0.4

Cadmium binding site 5 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd715 b:13.7 occ:0.33 O A:HOH510 2.0 12.4 0.3 O A:HOH511 2.1 14.6 0.3 O A:HOH509 2.2 10.8 0.3 O A:HOH512 2.2 19.1 0.3 OD1 A:ASP131 2.3 11.6 0.3 O A:HOH508 2.4 13.3 0.3 OD1 A:ASP131 2.7 22.5 0.7 CG A:ASP131 3.2 12.5 0.3 OD2 A:ASP131 3.4 11.2 0.3 OG A:SER135 3.7 15.9 1.0 OE2 A:GLU134 3.9 15.4 0.3 CG A:ASP131 3.9 15.7 0.7 CG A:GLU134 4.3 12.0 0.3 CD A:GLU134 4.4 10.8 0.3 CB A:ASP131 4.6 14.6 0.3 O A:HOH488 4.6 46.0 1.0 CB A:ASP131 4.8 14.2 0.7 OD2 A:ASP131 4.8 16.8 0.7 OE1 A:GLU134 4.8 22.0 0.7 O A:ASP131 5.0 11.1 0.7

Cadmium binding site 6 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd716 b:11.6 occ:0.33 O A:HOH513 2.1 4.9 0.3 O A:HOH515 2.4 5.4 0.3 O A:HOH514 2.5 12.9 0.3 OE2 A:GLU134 3.5 15.4 0.3 OE1 A:GLU134 4.1 22.0 0.7 O A:HOH509 4.3 10.8 0.3 OE1 A:GLU134 4.4 15.8 0.3 CD A:GLU134 4.4 10.8 0.3 O A:HOH452 4.4 15.7 0.3 O A:HOH520 4.5 5.4 0.3 O A:HOH510 4.7 12.4 0.3 OE2 A:GLU134 4.7 11.2 0.7 CD A:GLU134 4.8 13.3 0.7 O A:HOH519 4.9 13.7 0.3

Cadmium binding site 7 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd719 b:28.4 occ:0.50 NE2 A:HIS136 2.4 15.5 1.0 O A:HOH518 2.4 16.4 0.5 O A:HOH516 2.4 34.7 0.5 O A:HOH517 2.5 15.3 0.5 O A:HOH409 2.9 23.2 1.0 CE1 A:HIS136 3.3 17.7 1.0 CD2 A:HIS136 3.3 11.9 1.0 O A:HOH255 4.3 19.1 1.0 ND1 A:HIS136 4.5 12.8 1.0 CG A:HIS136 4.5 10.7 1.0 CB A:SER135 4.8 11.8 1.0

Cadmium binding site 8 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd720 b:12.3 occ:0.30 O A:HOH435 1.9 19.7 0.3 O A:HOH519 2.2 13.7 0.3 O A:HOH521 2.2 13.3 0.3 NE2 A:HIS118 2.5 13.1 0.7 O A:HOH520 2.6 5.4 0.3 CE1 A:HIS118 2.6 12.0 0.3 O A:HOH452 2.7 15.7 0.3 CE1 A:HIS118 3.0 9.9 0.7 NE2 A:HIS118 3.1 11.1 0.3 OE2 A:GLU134 3.2 11.2 0.7 CB A:CYS130 3.6 13.2 1.0 CD2 A:HIS118 3.7 13.5 0.7 SG A:CYS130 3.8 14.4 1.0 ND1 A:HIS118 3.8 11.4 0.3 OG A:SER122 3.8 14.3 0.3 O A:HOH514 4.2 12.9 0.3 ND1 A:HIS118 4.2 14.0 0.7 O A:HOH513 4.3 4.9 0.3 CD2 A:HIS118 4.4 11.1 0.3 CD A:GLU134 4.4 13.3 0.7 CG A:HIS118 4.6 11.5 0.7 CG A:HIS118 4.7 10.9 0.3 CA A:CYS130 4.8 10.9 1.0 O A:HOH436 4.9 16.3 0.3 CB A:SER122 5.0 14.7 0.7 CB A:SER122 5.0 15.0 0.3

Cadmium binding site 9 out of 9 in the Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Structure of Recombinant Mouse L Chain Ferritin at 1.2 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd721 b:23.1 occ:0.20 OE2 A:GLU57 2.0 26.9 0.6 O A:HOH523 2.1 25.6 0.3 NE2 A:HIS53 2.2 15.6 0.6 O A:HOH524 2.3 20.7 0.2 O A:HOH522 2.4 49.0 0.3 CD2 A:HIS53 3.1 12.8 0.6 CE1 A:HIS53 3.2 15.2 0.6 CD A:GLU57 3.2 19.1 0.6 CG A:GLU57 3.9 15.5 0.4 CG A:GLU57 4.0 11.7 0.6 OE1 A:GLU57 4.2 17.5 0.6 CD A:GLU57 4.2 22.7 0.4 CG A:HIS53 4.3 12.1 0.6 ND1 A:HIS53 4.3 16.1 0.6 OE2 A:GLU57 4.6 29.7 0.4 OE1 A:GLU57 4.8 26.0 0.4 O A:HOH420 5.0 45.0 1.0

T.Granier, B.Langlois D'estaintot, B.Gallois, J.-M.Chevalier, G.Precigoux, P.Santambrogio, P.Arosio. Structural Description of the Active Sites of Mouse L-Chain Ferritin at 1.2A Resolution J.Biol.Inorg.Chem. V. 8 105 2003.
ISSN: ISSN 0949-8257
PubMed: 12459904
DOI: 10.1007/S00775-002-0389-4