Cadmium in PDB 7vit: Crystal Structure of Au(400EQ)-Apo-R168H/L169C-Rhlfr

The structure of Crystal Structure of Au(400EQ)-Apo-R168H/L169C-Rhlfr, PDB code: 7vit 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)	12.96 / 1.90
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	180.889, 180.889, 180.889, 90, 90, 90
R / Rfree (%)	18.3 / 21.7

The structure of Crystal Structure of Au(400EQ)-Apo-R168H/L169C-Rhlfr also contains other interesting chemical elements:

Chlorine	(Cl)	2 atoms
Gold	(Au)	8 atoms

The binding sites of Cadmium atom in the Crystal Structure of Au(400EQ)-Apo-R168H/L169C-Rhlfr (pdb code 7vit). 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(400EQ)-Apo-R168H/L169C-Rhlfr, PDB code: 7vit:
Jump to Cadmium binding site number: 1; 2; 3;

Cadmium binding site 1 out of 3 in the Crystal Structure of Au(400EQ)-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(400EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd201 b:16.5 occ:0.33 OE1 A:GLU130 2.4 17.1 1.0 OE2 A:GLU130 2.4 19.9 1.0 O A:HOH465 2.4 31.4 0.3 CD A:GLU130 2.8 18.5 1.0 O A:HOH322 4.1 22.2 1.0 CG A:GLU130 4.3 15.8 1.0 O A:HOH308 4.3 24.9 1.0

Cadmium binding site 2 out of 3 in the Crystal Structure of Au(400EQ)-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(400EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd202 b:22.2 occ:0.20 O A:HOH322 2.2 22.2 1.0 O A:HOH428 2.3 31.6 1.0 O A:HOH370 4.0 28.4 1.0 OE1 A:GLU130 4.0 17.1 1.0 OD1 A:ASP127 4.2 17.8 1.0 OG A:SER131 4.5 22.9 1.0 CB A:GLU130 5.0 16.2 1.0

Cadmium binding site 3 out of 3 in the Crystal Structure of Au(400EQ)-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(400EQ)-Apo-R168H/L169C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd211 b:18.7 occ:0.50 OD2 A:ASP80 2.0 10.4 1.0 OD1 A:ASP80 2.5 10.8 1.0 O A:HOH480 2.5 13.7 1.0 CG A:ASP80 2.6 12.5 1.0 CB A:ASP80 4.1 14.0 1.0 O A:HOH353 4.4 19.6 1.0 O A:HOH402 4.4 24.6 1.0 O A:HOH461 5.0 26.1 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