Cadmium in PDB 7viq: Crystal Structure of Au(50EQ)-Apo-R168H/L169C-Rhlfr

The structure of Crystal Structure of Au(50EQ)-Apo-R168H/L169C-Rhlfr, PDB code: 7viq 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)	12.95 / 1.90
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	180.734, 180.734, 180.734, 90, 90, 90
R / Rfree (%)	16.9 / 19.5

The structure of Crystal Structure of Au(50EQ)-Apo-R168H/L169C-Rhlfr also contains other interesting chemical elements:

Gold

(Au)

8 atoms

The binding sites of Cadmium atom in the Crystal Structure of Au(50EQ)-Apo-R168H/L169C-Rhlfr (pdb code 7viq). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 4 binding sites of Cadmium where determined in the Crystal Structure of Au(50EQ)-Apo-R168H/L169C-Rhlfr, PDB code: 7viq:
Jump to Cadmium binding site number: 1; 2; 3; 4;

Cadmium binding site 1 out of 4 in the Crystal Structure of Au(50EQ)-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(50EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd211 b:25.2 occ:0.50 OD2 A:ASP80 1.6 3.1 1.0 CG A:ASP80 2.5 10.9 1.0 OD1 A:ASP80 2.6 9.7 1.0 CB A:ASP80 4.0 10.9 1.0 O A:HOH344 4.5 20.1 1.0

Cadmium binding site 2 out of 4 in the Crystal Structure of Au(50EQ)-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(50EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd212 b:87.2 occ:0.33 OE1 A:GLU130 2.7 36.2 1.0 OE2 A:GLU130 3.4 32.7 1.0 CD A:GLU130 3.4 28.2 1.0 AU A:AU203 4.3 32.7 0.2 AU A:AU206 4.4 39.3 0.1 CD A:CD214 4.7 45.1 0.2 CG A:GLU130 4.9 23.7 1.0

Cadmium binding site 3 out of 4 in the Crystal Structure of Au(50EQ)-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(50EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd213 b:27.8 occ:0.20 OE1 A:GLU60 2.4 24.2 1.0 OE2 A:GLU56 2.6 44.2 1.0 CD A:GLU60 3.2 24.2 1.0 OE2 A:GLU60 3.2 30.9 1.0 CD A:GLU56 3.7 35.7 1.0 OE1 A:GLU53 4.3 32.5 1.0 CG A:GLU56 4.4 20.7 1.0 CG A:GLU57 4.5 21.0 1.0 CG A:GLU60 4.6 17.3 1.0 OE1 A:GLU56 4.7 32.8 1.0 O A:HOH447 4.8 62.4 1.0

Cadmium binding site 4 out of 4 in the Crystal Structure of Au(50EQ)-Apo-R168H/L169C-Rhlfr


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Crystal Structure of Au(50EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd214 b:45.1 occ:0.25 O A:HOH352 2.6 33.2 1.0 OD1 A:ASP127 3.2 30.1 1.0 OG A:SER131 4.0 35.0 1.0 OE1 A:GLU130 4.2 36.2 1.0 CG A:ASP127 4.5 28.9 1.0 CD A:CD212 4.7 87.2 0.3

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