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Cadmium in PDB 1jk4: Des 1-6 Bovine Neurophysin II Complex with Vasopressin

Protein crystallography data

The structure of Des 1-6 Bovine Neurophysin II Complex with Vasopressin, PDB code: 1jk4 was solved by J.P.Rose, B.-C.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.30
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 50.900, 50.900, 105.800, 90.00, 90.00, 120.00
R / Rfree (%) 23.4 / 29.9

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Des 1-6 Bovine Neurophysin II Complex with Vasopressin (pdb code 1jk4). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 3 binding sites of Cadmium where determined in the Des 1-6 Bovine Neurophysin II Complex with Vasopressin, PDB code: 1jk4:
Jump to Cadmium binding site number: 1; 2; 3;

Cadmium binding site 1 out of 3 in 1jk4

Go back to Cadmium Binding Sites List in 1jk4
Cadmium binding site 1 out of 3 in the Des 1-6 Bovine Neurophysin II Complex with Vasopressin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Des 1-6 Bovine Neurophysin II Complex with Vasopressin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd301

b:23.1
occ:1.00
OD1 A:ASP76 2.2 22.2 1.0
OD2 A:ASP76 2.5 23.9 1.0
CG A:ASP76 2.6 21.8 1.0
O B:HOH212 2.9 14.8 0.9
O A:HOH252 3.9 25.6 0.9
O A:HOH220 3.9 26.8 0.8
CB B:GLN4 4.0 30.2 1.0
CB A:ASP76 4.1 19.7 1.0
OE2 A:GLU77 4.3 25.9 1.0
CD A:CD302 4.4 29.2 1.0
CD A:GLU77 4.4 24.3 1.0
O B:GLN4 4.4 31.6 1.0
C B:GLN4 4.6 31.3 1.0
CG A:GLU77 4.6 21.1 1.0
CA B:GLN4 4.9 30.9 1.0
CG B:GLN4 4.9 30.1 1.0
OE1 A:GLU77 5.0 25.5 1.0
O B:HOH218 5.0 32.5 1.2

Cadmium binding site 2 out of 3 in 1jk4

Go back to Cadmium Binding Sites List in 1jk4
Cadmium binding site 2 out of 3 in the Des 1-6 Bovine Neurophysin II Complex with Vasopressin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Des 1-6 Bovine Neurophysin II Complex with Vasopressin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd302

b:29.2
occ:1.00
OE1 A:GLU77 2.5 25.5 1.0
OE2 A:GLU77 2.8 25.9 1.0
CD A:GLU77 2.9 24.3 1.0
CG A:GLU77 4.3 21.1 1.0
CD A:CD301 4.4 23.1 1.0
O A:HOH259 4.8 17.0 0.9

Cadmium binding site 3 out of 3 in 1jk4

Go back to Cadmium Binding Sites List in 1jk4
Cadmium binding site 3 out of 3 in the Des 1-6 Bovine Neurophysin II Complex with Vasopressin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Des 1-6 Bovine Neurophysin II Complex with Vasopressin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd303

b:48.3
occ:1.00
O A:LEU7 2.4 35.8 1.0
C A:LEU7 3.2 36.0 1.0
CB A:LEU7 3.3 37.7 1.0
N A:LEU7 3.4 36.6 1.0
CA A:LEU7 3.4 36.6 1.0
N A:ARG8 4.5 35.3 1.0
CG A:LEU7 4.6 39.0 1.0

Reference:

C.K.Wu, B.Hu, J.P.Rose, Z.J.Liu, T.L.Nguyen, C.Zeng, E.Breslow, B.C.Wang. Structures of An Unliganded Neurophysin and Its Vasopressin Complex: Implications For Binding and Allosteric Mechanisms Protein Sci. V. 10 1869 2001.
ISSN: ISSN 0961-8368
PubMed: 11514677
DOI: 10.1110/PS.10601
Page generated: Wed Oct 28 09:53:41 2020
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