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Cadmium in PDB 1ncx: Troponin C

Protein crystallography data

The structure of Troponin C, PDB code: 1ncx was solved by M.Sundaralingam, S.T.Rao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.80
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 66.700, 66.700, 60.800, 90.00, 90.00, 120.00
R / Rfree (%) n/a / n/a

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Troponin C (pdb code 1ncx). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Troponin C, PDB code: 1ncx:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 1ncx

Go back to Cadmium Binding Sites List in 1ncx
Cadmium binding site 1 out of 2 in the Troponin C


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Troponin C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd163

b:21.1
occ:1.00
OD1 A:ASP106 2.0 13.2 1.0
O A:HOH176 2.2 17.0 1.0
OD1 A:ASP110 2.3 17.4 1.0
O A:PHE112 2.3 17.5 1.0
OD1 A:ASN108 2.3 12.6 1.0
OE1 A:GLU117 2.5 14.7 1.0
OE2 A:GLU117 2.5 19.4 1.0
CD A:GLU117 2.9 19.1 1.0
CG A:ASP106 3.1 14.4 1.0
CG A:ASP110 3.2 21.7 1.0
CG A:ASN108 3.4 24.5 1.0
C A:PHE112 3.5 15.2 1.0
OD2 A:ASP110 3.7 22.9 1.0
ND2 A:ASN108 3.9 22.9 1.0
OD2 A:ASP106 4.0 15.7 1.0
CA A:ASP106 4.0 8.2 1.0
CB A:ASP106 4.0 13.3 1.0
N A:ASP110 4.1 17.6 1.0
N A:PHE112 4.1 8.1 1.0
N A:ASN108 4.3 20.4 1.0
C A:ASP106 4.3 14.1 1.0
CA A:PHE112 4.3 10.7 1.0
CB A:ASP110 4.4 22.3 1.0
CG A:GLU117 4.4 15.1 1.0
N A:ILE113 4.4 11.0 1.0
CA A:ILE113 4.5 12.1 1.0
OD2 A:ASP114 4.5 18.2 1.0
N A:ALA109 4.5 18.3 1.0
CB A:ASN108 4.5 22.0 1.0
N A:LYS107 4.5 12.8 1.0
N A:ASP114 4.6 11.1 1.0
CB A:PHE112 4.7 18.9 1.0
CA A:ASP110 4.7 18.9 1.0
CA A:ASN108 4.8 23.8 1.0
C A:ASN108 4.8 23.4 1.0
N A:GLY111 4.8 17.4 1.0
C A:ILE113 4.9 9.2 1.0
O A:HOH166 4.9 24.8 1.0
O A:ASP106 4.9 17.1 1.0
CG A:ASP114 4.9 19.4 1.0

Cadmium binding site 2 out of 2 in 1ncx

Go back to Cadmium Binding Sites List in 1ncx
Cadmium binding site 2 out of 2 in the Troponin C


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Troponin C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd164

b:17.6
occ:1.00
OD1 A:ASP142 2.1 14.0 1.0
O A:HOH209 2.2 17.1 1.0
OD1 A:ASP146 2.3 10.8 1.0
O A:ARG148 2.3 12.2 1.0
OD1 A:ASN144 2.4 10.5 1.0
OE1 A:GLU153 2.4 13.1 1.0
OE2 A:GLU153 2.6 12.1 1.0
CD A:GLU153 2.9 13.1 1.0
CG A:ASP146 3.2 19.0 1.0
CG A:ASP142 3.2 11.4 1.0
C A:ARG148 3.5 17.8 1.0
CG A:ASN144 3.5 15.5 1.0
OD2 A:ASP146 3.6 18.5 1.0
ND2 A:ASN144 4.1 16.5 1.0
CA A:ASP142 4.1 16.1 1.0
OD2 A:ASP142 4.1 13.8 1.0
CB A:ASP142 4.1 11.3 1.0
N A:ASN144 4.2 13.6 1.0
N A:ASP146 4.3 12.7 1.0
N A:ARG148 4.3 15.6 1.0
N A:ILE149 4.3 9.3 1.0
CG A:GLU153 4.4 9.5 1.0
CA A:ILE149 4.4 10.8 1.0
CA A:ARG148 4.4 15.1 1.0
CB A:ASP146 4.4 18.0 1.0
C A:ASP142 4.5 15.3 1.0
N A:LYS143 4.5 14.9 1.0
N A:ASP150 4.6 10.3 1.0
CB A:ASN144 4.7 10.2 1.0
N A:ASN145 4.7 11.5 1.0
O A:HOH210 4.8 25.2 1.0
CA A:ASN144 4.8 15.1 1.0
CA A:ASP146 4.8 15.6 1.0
CG A:ARG148 4.8 34.1 1.0
C A:ASN144 4.9 14.6 1.0
N A:GLY147 4.9 14.9 1.0
OD2 A:ASP150 4.9 28.1 1.0
C A:ILE149 5.0 11.2 1.0

Reference:

S.T.Rao, K.A.Satyshur, M.L.Greaser, M.Sundaralingam. X-Ray Structures of Mn, Cd and Tb Metal Complexes of Troponin C. Acta Crystallogr.,Sect.D V. 52 916 1996.
ISSN: ISSN 0907-4449
PubMed: 15299599
DOI: 10.1107/S0907444996006166
Page generated: Fri Aug 28 12:16:01 2020
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