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Cadmium in PDB 2za6: Recombinant Horse L-Chain Apoferritin

Protein crystallography data

The structure of Recombinant Horse L-Chain Apoferritin, PDB code: 2za6 was solved by I.Yamashita, Y.Mishima, S.-Y.Park, J.G.Heddle, J.R.H.Tame, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.80 / 1.75
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 180.452, 180.452, 180.452, 90.00, 90.00, 90.00
R / Rfree (%) 19.5 / 22.5

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Recombinant Horse L-Chain Apoferritin (pdb code 2za6). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Recombinant Horse L-Chain Apoferritin, PDB code: 2za6:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 2za6

Go back to Cadmium Binding Sites List in 2za6
Cadmium binding site 1 out of 2 in the Recombinant Horse L-Chain Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Recombinant Horse L-Chain Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd201

b:28.8
occ:1.00
OE1 A:GLU46 2.2 21.1 1.0
OD1 A:ASP39 2.4 12.3 1.0
O A:HOH290 2.4 25.0 1.0
OE2 A:GLU46 2.4 23.0 1.0
CD A:GLU46 2.6 22.3 1.0
SG A:CYS49 2.6 11.8 1.0
CG A:ASP39 3.2 10.8 1.0
CB A:ASP39 3.5 8.5 1.0
CB A:CYS49 3.5 10.0 1.0
CD A:CD202 3.9 74.0 1.0
CA A:ASP39 4.0 8.5 1.0
CG A:GLU46 4.2 16.6 1.0
OD2 A:ASP39 4.3 9.5 1.0
CD2 A:HIS50 4.5 20.4 1.0
NE2 A:HIS50 4.5 20.9 1.0
N A:ASP39 4.8 8.3 1.0
CA A:GLU46 4.8 10.2 1.0
CB A:GLU46 4.9 10.7 1.0
CA A:CYS49 5.0 9.4 1.0

Cadmium binding site 2 out of 2 in 2za6

Go back to Cadmium Binding Sites List in 2za6
Cadmium binding site 2 out of 2 in the Recombinant Horse L-Chain Apoferritin


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Recombinant Horse L-Chain Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd202

b:74.0
occ:1.00
NE2 A:HIS50 2.2 20.9 1.0
OE2 A:GLU46 2.5 23.0 1.0
O A:HOH290 2.9 25.0 1.0
CE1 A:HIS50 3.2 23.8 1.0
CD2 A:HIS50 3.2 20.4 1.0
CD A:GLU46 3.7 22.3 1.0
CD A:CD201 3.9 28.8 1.0
O A:HOH264 3.9 21.8 1.0
ND1 A:HIS50 4.3 23.8 1.0
CG A:HIS50 4.4 16.3 1.0
CG A:GLU46 4.4 16.6 1.0
OE1 A:GLU46 4.5 21.1 1.0
CB A:GLU46 4.8 10.7 1.0

Reference:

K.Yoshizawa, Y.Mishima, S.-Y.Park, J.G.Heddle, J.R.H.Tame, K.Iwahori, M.Kobayashi, I.Yamashita. Effect of N-Terminal Residues on the Structural Stability of Recombinant Horse L-Chain Apoferritin in An Acidic Environment J.Biochem.(Tokyo) V. 142 707 2007.
ISSN: ISSN 0021-924X
PubMed: 17938140
DOI: 10.1093/JB/MVM187
Page generated: Wed Oct 28 10:00:45 2020
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