Cadmium in PDB 1dcd: Desulforedoxin Complexed with CD2+

The structure of Desulforedoxin Complexed with CD2+, PDB code: 1dcd was solved by M.Archer, A.L.Carvalho, S.Teixeira, M.J.Romao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	14.80 / 2.00
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	27.950, 27.950, 130.940, 90.00, 90.00, 120.00
R / Rfree (%)	18.9 / n/a

The binding sites of Cadmium atom in the Desulforedoxin Complexed with CD2+ (pdb code 1dcd). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Desulforedoxin Complexed with CD2+, PDB code: 1dcd:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in the Desulforedoxin Complexed with CD2+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Desulforedoxin Complexed with CD2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd37 b:23.1 occ:1.00 SG A:CYS9 2.5 22.1 1.0 SG A:CYS29 2.5 24.6 1.0 SG A:CYS28 2.5 20.7 1.0 SG A:CYS12 2.5 23.4 1.0 CB A:CYS9 3.3 13.5 1.0 CB A:CYS12 3.4 23.2 1.0 CB A:CYS28 3.5 7.7 1.0 CB A:CYS29 3.5 20.7 1.0 N A:CYS29 3.6 15.9 1.0 C A:CYS28 3.7 13.7 1.0 CA B:GLY24 3.8 20.1 1.0 N A:CYS12 4.0 20.5 1.0 CA A:CYS29 4.1 15.1 1.0 O A:CYS28 4.1 16.5 1.0 N B:GLY24 4.1 26.4 1.0 CA A:CYS28 4.1 13.4 1.0 CA A:CYS12 4.3 25.2 1.0 CB A:GLN14 4.5 17.1 1.0 C B:GLY24 4.7 16.5 1.0 NE2 A:GLN14 4.8 17.2 1.0 CA A:CYS9 4.8 28.9 1.0 C A:CYS12 4.9 26.3 1.0 CB A:LEU11 5.0 29.6 1.0 O B:HOH109 5.0 25.8 1.0

Cadmium binding site 2 out of 2 in the Desulforedoxin Complexed with CD2+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Desulforedoxin Complexed with CD2+ within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd37 b:25.7 occ:1.00 SG B:CYS9 2.5 22.6 1.0 SG B:CYS29 2.5 28.9 1.0 SG B:CYS12 2.5 24.0 1.0 SG B:CYS28 2.6 21.7 1.0 CB B:CYS9 3.1 13.1 1.0 CB B:CYS28 3.5 9.3 1.0 CB B:CYS12 3.5 22.0 1.0 CB B:CYS29 3.5 19.5 1.0 N B:CYS29 3.7 18.2 1.0 C B:CYS28 3.8 16.3 1.0 CA A:GLY24 3.9 20.0 1.0 N B:CYS12 3.9 22.4 1.0 CA B:CYS28 4.2 12.5 1.0 N A:GLY24 4.2 25.5 1.0 CA B:CYS29 4.2 18.9 1.0 O B:CYS28 4.2 19.1 1.0 CA B:CYS12 4.2 25.5 1.0 CA B:CYS9 4.6 29.5 1.0 CB B:GLN14 4.7 17.9 1.0 C A:GLY24 4.8 15.7 1.0 CB B:LEU11 4.8 30.3 1.0 C B:CYS12 4.9 27.0 1.0 NE2 B:GLN14 4.9 18.1 1.0 C B:LEU11 4.9 26.4 1.0

M.Archer, A.L.Carvalho, S.Teixeira, I.Moura, J.J.Moura, F.Rusnak, M.J.Romao. Structural Studies By X-Ray Diffraction on Metal Substituted Desulforedoxin, A Rubredoxin-Type Protein. Protein Sci. V. 8 1536 1999.
ISSN: ISSN 0961-8368
PubMed: 10422844