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Cadmium in PDB 7vio: Crystal Structure of Recombinant Horse Spleen Apo-R168H/L169C-Fr

Protein crystallography data

The structure of Crystal Structure of Recombinant Horse Spleen Apo-R168H/L169C-Fr, PDB code: 7vio was solved by C.Lu, X.Peng, B.Maity, N.Ito, S.Abe, J.Wu, T.Ueno, D.Lu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.31 / 1.50
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 182.644, 182.644, 182.644, 90, 90, 90
R / Rfree (%) 17.5 / 19.3

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Crystal Structure of Recombinant Horse Spleen Apo-R168H/L169C-Fr (pdb code 7vio). 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 Recombinant Horse Spleen Apo-R168H/L169C-Fr, PDB code: 7vio:
Jump to Cadmium binding site number: 1; 2; 3;

Cadmium binding site 1 out of 3 in 7vio

Go back to Cadmium Binding Sites List in 7vio
Cadmium binding site 1 out of 3 in the Crystal Structure of Recombinant Horse Spleen Apo-R168H/L169C-Fr


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 Recombinant Horse Spleen Apo-R168H/L169C-Fr within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd202

b:27.4
occ:0.50
OD1 A:ASP80 2.2 9.4 1.0
CG A:ASP80 3.0 12.5 1.0
OD2 A:ASP80 3.2 18.1 1.0
CB A:ASP80 4.4 11.8 1.0
O A:HOH316 4.4 20.5 1.0

Cadmium binding site 2 out of 3 in 7vio

Go back to Cadmium Binding Sites List in 7vio
Cadmium binding site 2 out of 3 in the Crystal Structure of Recombinant Horse Spleen Apo-R168H/L169C-Fr


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 Recombinant Horse Spleen Apo-R168H/L169C-Fr within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd203

b:79.1
occ:0.33
OE1 A:GLU130 2.6 18.2 1.0
CD A:GLU130 3.4 17.5 1.0
OE2 A:GLU130 3.5 16.7 1.0
OD1 A:ASP127 4.3 21.0 1.0
CD A:CD204 4.8 40.0 0.1
CG A:GLU130 4.9 13.5 1.0

Cadmium binding site 3 out of 3 in 7vio

Go back to Cadmium Binding Sites List in 7vio
Cadmium binding site 3 out of 3 in the Crystal Structure of Recombinant Horse Spleen Apo-R168H/L169C-Fr


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 Recombinant Horse Spleen Apo-R168H/L169C-Fr within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd204

b:40.0
occ:0.15
O A:HOH322 2.2 28.2 1.0
OD1 A:ASP127 2.7 21.0 1.0
CG A:ASP127 3.8 17.1 1.0
OG A:SER131 4.1 20.7 1.0
OD2 A:ASP127 4.1 18.3 1.0
OE1 A:GLU130 4.5 18.2 1.0
CD A:CD203 4.8 79.1 0.3

Reference:

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
Page generated: Thu Jul 10 15:36:57 2025

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