Cadmium in PDB 5gu3: Crystal Structure of Au(E).Cl-Apo-E45C/R52C-Rhlfr

The structure of Crystal Structure of Au(E).Cl-Apo-E45C/R52C-Rhlfr, PDB code: 5gu3 was solved by B.Maity, S.Abe, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.20 / 2.03
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	181.502, 181.502, 181.502, 90.00, 90.00, 90.00
R / Rfree (%)	18.9 / 24.4

The structure of Crystal Structure of Au(E).Cl-Apo-E45C/R52C-Rhlfr also contains other interesting chemical elements:

Gold

(Au)

6 atoms

The binding sites of Cadmium atom in the Crystal Structure of Au(E).Cl-Apo-E45C/R52C-Rhlfr (pdb code 5gu3). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 5 binding sites of Cadmium where determined in the Crystal Structure of Au(E).Cl-Apo-E45C/R52C-Rhlfr, PDB code: 5gu3:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5;

Cadmium binding site 1 out of 5 in the Crystal Structure of Au(E).Cl-Apo-E45C/R52C-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(E).Cl-Apo-E45C/R52C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ X:Cd209 b:44.8 occ:0.50 OD2 X:ASP80 2.1 39.7 1.0 OD1 X:ASP80 2.6 23.7 1.0 CG X:ASP80 2.8 29.1 1.0 CB X:ASP80 4.2 36.5 1.0 O X:HOH357 4.5 39.6 1.0

Cadmium binding site 2 out of 5 in the Crystal Structure of Au(E).Cl-Apo-E45C/R52C-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(E).Cl-Apo-E45C/R52C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ X:Cd210 b:54.4 occ:0.20 OE1 X:GLU130 2.3 52.7 1.0 AU X:AU205 3.0 89.1 0.2 CD X:GLU130 3.1 47.6 1.0 OE2 X:GLU130 3.3 51.6 1.0 CD X:CD211 4.4 73.5 0.2 CG X:GLU130 4.5 50.1 1.0 AU X:AU206 4.8 89.7 0.1

Cadmium binding site 3 out of 5 in the Crystal Structure of Au(E).Cl-Apo-E45C/R52C-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(E).Cl-Apo-E45C/R52C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ X:Cd211 b:73.5 occ:0.20 OD1 X:ASP127 3.5 59.9 1.0 OE1 X:GLU130 4.1 52.7 1.0 CD X:CD210 4.4 54.4 0.2 CG X:ASP127 4.7 53.6 1.0 OG X:SER131 4.7 69.0 1.0 CB X:GLU130 4.9 48.6 1.0

Cadmium binding site 4 out of 5 in the Crystal Structure of Au(E).Cl-Apo-E45C/R52C-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(E).Cl-Apo-E45C/R52C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ X:Cd212 b:72.5 occ:0.40 OE1 X:GLU60 2.5 44.2 1.0 OE2 X:GLU56 2.6 63.1 1.0 OE2 X:GLU60 2.8 48.5 1.0 CD X:GLU60 3.0 44.9 1.0 CD X:GLU56 3.6 51.5 1.0 CG X:GLU56 4.2 37.8 1.0 CG X:GLU60 4.5 36.2 1.0 OE1 X:GLU56 4.5 62.2 1.0 CG X:GLU57 4.8 43.8 1.0

Cadmium binding site 5 out of 5 in the Crystal Structure of Au(E).Cl-Apo-E45C/R52C-Rhlfr


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Crystal Structure of Au(E).Cl-Apo-E45C/R52C-Rhlfr within 5.0Å range: probe atom residue distance (Å) B Occ X:Cd213 b:55.5 occ:0.30 NE2 X:HIS132 3.2 67.1 1.0 OG X:SER131 3.6 69.0 1.0 OD2 X:ASP127 3.6 55.2 1.0 CB X:SER131 3.9 61.7 1.0 CE1 X:HIS132 4.1 71.8 1.0 CD2 X:HIS132 4.1 66.1 1.0 O X:HOH329 4.4 38.3 1.0 CG X:ASP127 4.7 53.6 1.0

B.Maity, S.Abe, T.Ueno. Observation of Gold Sub-Nanocluster Nucleation Within A Crystalline Protein Cage Nat Commun V. 8 14820 2017.
ISSN: ESSN 2041-1723
PubMed: 28300064
DOI: 10.1038/NCOMMS14820