Cadmium in PDB 7vip: Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr

The structure of Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr, PDB code: 7vip was solved by C.Lu, X.Peng, B.Maity, N.Ito, S.Abe, T.Ueno, D.Lu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	12.88 / 1.90
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	182.126, 182.126, 182.126, 90, 90, 90
R / Rfree (%)	18.1 / 21.2

The structure of Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr also contains other interesting chemical elements:

Gold

(Au)

2 atoms

The binding sites of Cadmium atom in the Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr (pdb code 7vip). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 3 binding sites of Cadmium where determined in the Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr, PDB code: 7vip:
Jump to Cadmium binding site number: 1; 2; 3;

Cadmium binding site 1 out of 3 in the Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr


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 Au(10EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd203 b:19.0 occ:0.50 OD2 A:ASP80 1.6 3.4 1.0 CG A:ASP80 2.5 11.3 1.0 OD1 A:ASP80 2.6 9.0 1.0 CB A:ASP80 4.1 10.6 1.0 O A:HOH302 4.5 17.0 1.0

Cadmium binding site 2 out of 3 in the Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr


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 Au(10EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd204 b:44.5 occ:0.33 OD1 A:ASP127 3.3 20.9 1.0 CG A:ASP127 4.5 17.8 1.0 OE1 A:GLU130 4.7 18.8 1.0 CB A:SER131 4.9 17.1 1.0

Cadmium binding site 3 out of 3 in the Crystal Structure of Au(10EQ)-Apo-R168H/L169C-Rhlfr


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 Au(10EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd206 b:36.3 occ:0.50 OE1 A:GLU130 2.3 18.8 1.0 CD A:GLU130 3.0 16.1 1.0 OE2 A:GLU130 3.1 18.5 1.0 CG A:GLU130 4.5 14.2 1.0 AU A:AU207 4.6 41.3 0.2 CB A:GLU130 5.0 11.6 1.0

C.Lu, B.Maity, X.Peng, N.Ito, S.Abe, X.Sheng, T.Ueno, D.Lu. Design of A Gold Clustering Site in An Engineered Apo-Ferritin Cage Commun Chem V. 5 2022.
ISSN: ESSN 2399-3669
DOI: 10.1038/S42004-022-00651-1