Cadmium in PDB 2iy2: Crystal Structure of the N-Terminal Dimer Domain of E.Coli Dsbg

The structure of Crystal Structure of the N-Terminal Dimer Domain of E.Coli Dsbg, PDB code: 2iy2 was solved by S.-M.Yeh, P.Metcalf, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	56.79 / 1.9
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	56.842, 56.842, 42.049, 90.00, 90.00, 90.00
R / Rfree (%)	19.6 / 23.6

The binding sites of Cadmium atom in the Crystal Structure of the N-Terminal Dimer Domain of E.Coli Dsbg (pdb code 2iy2). 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 the N-Terminal Dimer Domain of E.Coli Dsbg, PDB code: 2iy2:
Jump to Cadmium binding site number: 1; 2; 3; 4;

Cadmium binding site 1 out of 4 in the Crystal Structure of the N-Terminal Dimer Domain of E.Coli Dsbg


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 the N-Terminal Dimer Domain of E.Coli Dsbg within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1072 b:33.2 occ:1.00 O A:HOH2024 2.1 31.4 1.0 O A:HOH2023 2.3 19.4 1.0 NE2 A:HIS49 2.3 9.4 1.0 CE1 A:HIS49 3.0 14.0 1.0 CD2 A:HIS49 3.5 12.7 1.0 ND1 A:HIS49 4.2 12.9 1.0 CB B:ASN57 4.3 15.5 1.0 CG A:HIS49 4.5 13.0 1.0 CB B:PRO24 4.6 23.0 1.0 O A:LYS48 5.0 15.5 1.0

Cadmium binding site 2 out of 4 in the Crystal Structure of the N-Terminal Dimer Domain of E.Coli Dsbg


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 the N-Terminal Dimer Domain of E.Coli Dsbg within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd1073 b:22.1 occ:0.70 OD1 A:ASP46 2.3 12.1 1.0 CG A:ASP46 3.1 16.4 1.0 CB A:ASP46 3.3 18.9 1.0 OD2 A:ASP46 4.3 14.2 1.0 CA B:GLY25 4.4 23.4 1.0 N B:GLY25 4.4 22.8 1.0 CD A:LYS48 4.5 23.0 1.0 CE1 A:HIS49 4.6 14.0 1.0 CA A:ASP46 4.9 19.2 1.0 ND1 A:HIS49 4.9 12.9 1.0

Cadmium binding site 3 out of 4 in the Crystal Structure of the N-Terminal Dimer Domain of E.Coli Dsbg


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 the N-Terminal Dimer Domain of E.Coli Dsbg within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd1072 b:25.8 occ:1.00 O B:HOH2022 2.3 18.1 1.0 NE2 B:HIS49 2.3 6.2 1.0 O A:HOH2026 2.3 27.9 1.0 CE1 B:HIS49 3.1 9.1 1.0 CD2 B:HIS49 3.5 8.7 1.0 ND1 B:HIS49 4.3 9.3 1.0 CB A:ASN57 4.3 15.0 1.0 CB A:PRO24 4.4 17.0 1.0 CG B:HIS49 4.5 12.5 1.0 CG A:PRO24 4.7 17.0 1.0 ND2 A:ASN57 4.9 15.8 1.0

Cadmium binding site 4 out of 4 in the Crystal Structure of the N-Terminal Dimer Domain of E.Coli Dsbg


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 the N-Terminal Dimer Domain of E.Coli Dsbg within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd1073 b:20.6 occ:0.80 OD2 B:ASP46 2.3 12.7 1.0 O B:HOH2020 2.4 16.7 1.0 CG B:ASP46 3.2 15.6 1.0 CB B:ASP46 3.4 17.3 1.0 OD1 B:ASP46 4.3 15.0 1.0 CA A:GLY25 4.4 16.0 1.0 N A:GLY25 4.4 15.6 1.0 CE1 B:HIS49 4.5 9.1 1.0 O B:HOH2019 4.7 26.9 1.0 CD B:LYS48 4.8 14.9 1.0 ND1 B:HIS49 4.9 9.3 1.0 CA B:ASP46 4.9 17.3 1.0

S.-M.Yeh, N.Koon, C.Squire, P.Metcalf. Structures of the Dimerization Domains of the Escherichia Coli Disulfide-Bond Isomerase Enzymes Dsbc and Dsbg Acta Crystallogr.,Sect.D V. 63 465 2007.
ISSN: ISSN 0907-4449
PubMed: 17372350
DOI: 10.1107/S0907444907003320