Cadmium in PDB 2z5q: Apo-Fr with Intermediate Content of Pd Ion

The structure of Apo-Fr with Intermediate Content of Pd Ion, PDB code: 2z5q was solved by T.Ueno, K.Hirata, M.Abe, M.Suzuki, S.Abe, N.Shimizu, M.Yamamoto, M.Takata, Y.Watanabe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.39 / 2.10
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	180.570, 180.570, 180.570, 90.00, 90.00, 90.00
R / Rfree (%)	19.9 / 25.4

The structure of Apo-Fr with Intermediate Content of Pd Ion also contains other interesting chemical elements:

Palladium

(Pd)

9 atoms

The binding sites of Cadmium atom in the Apo-Fr with Intermediate Content of Pd Ion (pdb code 2z5q). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total only one binding site of Cadmium was determined in the Apo-Fr with Intermediate Content of Pd Ion, PDB code: 2z5q:

Cadmium binding site 1 out of 1 in the Apo-Fr with Intermediate Content of Pd Ion


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Apo-Fr with Intermediate Content of Pd Ion within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd210 b:17.7 occ:0.50 OD2 A:ASP80 2.3 15.2 1.0 OD1 A:ASP80 2.4 14.9 1.0 O A:HOH1113 2.7 3.5 1.0 CG A:ASP80 2.7 14.9 1.0 CB A:ASP80 4.2 14.1 1.0 O A:HOH1017 4.4 14.0 1.0 O1 A:GOL302 4.6 27.4 1.0

T.Ueno, M.Abe, K.Hirata, S.Abe, M.Suzuki, N.Shimizu, M.Yamamoto, M.Takata, Y.Watanabe. Process of Accumulation of Metal Ions on the Interior Surface of Apo-Ferritin: Crystal Structures of A Series of Apo-Ferritins Containing Variable Quantities of Pd(II) Ions. J.Am.Chem.Soc. V. 131 5094 2009.
ISSN: ISSN 0002-7863
PubMed: 19317403
DOI: 10.1021/JA806688S