Atomistry » Cadmium » PDB 2wxt-3a05 » 2za8
Atomistry »
  Cadmium »
    PDB 2wxt-3a05 »
      2za8 »

Cadmium in PDB 2za8: Recombinant Horse L-Chain Apoferritin N-Terminal Deletion Mutant (Residues 1-8)

Protein crystallography data

The structure of Recombinant Horse L-Chain Apoferritin N-Terminal Deletion Mutant (Residues 1-8), PDB code: 2za8 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) 19.76 / 1.40
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 180.210, 180.210, 180.210, 90.00, 90.00, 90.00
R / Rfree (%) 22 / 23.9

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Recombinant Horse L-Chain Apoferritin N-Terminal Deletion Mutant (Residues 1-8) (pdb code 2za8). 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 N-Terminal Deletion Mutant (Residues 1-8), PDB code: 2za8:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 2za8

Go back to Cadmium Binding Sites List in 2za8
Cadmium binding site 1 out of 2 in the Recombinant Horse L-Chain Apoferritin N-Terminal Deletion Mutant (Residues 1-8)


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 N-Terminal Deletion Mutant (Residues 1-8) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1

b:18.0
occ:1.00
OD1 A:ASP39 2.2 11.9 1.0
OE2 A:GLU46 2.4 19.0 1.0
O A:HOH189 2.4 11.6 1.0
OE1 A:GLU46 2.4 19.6 1.0
O A:HOH192 2.5 12.0 1.0
SG A:CYS49 2.6 12.1 1.0
CD A:GLU46 2.7 18.2 1.0
CG A:ASP39 3.1 8.7 1.0
CB A:ASP39 3.4 8.3 1.0
CB A:CYS49 3.5 8.6 1.0
CD A:CD2 3.8 25.0 1.0
CA A:ASP39 4.0 8.2 1.0
OD2 A:ASP39 4.2 10.6 1.0
CG A:GLU46 4.3 14.6 1.0
NE2 A:HIS50 4.4 20.8 1.0
CD2 A:HIS50 4.4 19.0 1.0
O A:HOH263 4.7 25.5 1.0
N A:ASP39 4.8 8.0 1.0
CA A:GLU46 4.9 9.3 1.0
O A:HOH299 4.9 29.8 1.0
CA A:CYS49 4.9 8.7 1.0
CB A:GLU46 5.0 10.2 1.0

Cadmium binding site 2 out of 2 in 2za8

Go back to Cadmium Binding Sites List in 2za8
Cadmium binding site 2 out of 2 in the Recombinant Horse L-Chain Apoferritin N-Terminal Deletion Mutant (Residues 1-8)


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 N-Terminal Deletion Mutant (Residues 1-8) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd2

b:25.0
occ:1.00
NE2 A:HIS50 2.3 20.8 1.0
O A:HOH271 2.3 26.1 1.0
O A:HOH263 2.3 25.5 1.0
OE2 A:GLU46 2.3 19.0 1.0
O A:HOH189 2.7 11.6 1.0
CE1 A:HIS50 3.2 22.6 1.0
CD2 A:HIS50 3.2 19.0 1.0
CD A:GLU46 3.3 18.2 1.0
O A:HOH192 3.4 12.0 1.0
CD A:CD1 3.8 18.0 1.0
CG A:GLU46 4.0 14.6 1.0
OE1 A:GLU46 4.2 19.6 1.0
ND1 A:HIS50 4.3 21.9 1.0
CG A:HIS50 4.4 15.8 1.0
CB A:GLU46 4.5 10.2 1.0
O A:HOH299 4.7 29.8 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: Thu Jul 10 12:17:46 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy