Atomistry » Iron » PDB 7cjj-7czi » 7cpc
Atomistry »
  Iron »
    PDB 7cjj-7czi »
      7cpc »

Iron in PDB 7cpc: His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding

Enzymatic activity of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding

All present enzymatic activity of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding:
1.16.3.1;

Protein crystallography data

The structure of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding, PDB code: 7cpc was solved by C.Gu, T.Zhang, G.Zhao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.28 / 2.80
Space group I 4
Cell size a, b, c (Å), α, β, γ (°) 125.845, 125.845, 176.41, 90, 90, 90
R / Rfree (%) 19.5 / 27

Other elements in 7cpc:

The structure of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding also contains other interesting chemical elements:

Nickel (Ni) 6 atoms

Iron Binding Sites:

The binding sites of Iron atom in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding (pdb code 7cpc). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding, PDB code: 7cpc:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 7cpc

Go back to Iron Binding Sites List in 7cpc
Iron binding site 1 out of 6 in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe202

b:47.2
occ:1.00
 OE1 B:GLU60 1.9 31.1 1.0
OE1 B:GLU24 2.2 41.2 1.0
ND1 B:HIS63 2.6 37.1 1.0
CD B:GLU60 2.8 36.6 1.0
CD B:GLU24 3.1 35.3 1.0
OE2 B:GLU60 3.1 46.1 1.0
OE2 B:GLU24 3.2 33.6 1.0
CG B:HIS63 3.4 37.3 1.0
CE1 B:HIS63 3.4 40.2 1.0
CB B:HIS63 3.7 31.3 1.0
OE1 B:GLN139 3.9 20.9 1.0
CG B:GLU60 4.1 29.3 1.0
CD2 B:HIS63 4.4 38.0 1.0
NE2 B:HIS63 4.4 46.8 1.0
CG1 B:VAL108 4.4 20.2 1.0
CG B:GLU24 4.4 28.5 1.0
CA B:GLU60 4.5 27.7 1.0
CB B:GLU60 4.6 28.3 1.0
CB B:GLU24 4.9 24.7 1.0
CD B:GLN139 4.9 26.2 1.0

Iron binding site 2 out of 6 in 7cpc

Go back to Iron Binding Sites List in 7cpc
Iron binding site 2 out of 6 in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe203

b:47.1
occ:1.00
 OE2 A:GLU60 1.9 44.6 1.0
OE1 A:GLU24 2.2 37.4 1.0
OE1 A:GLU60 2.3 31.7 1.0
CD A:GLU60 2.4 39.3 1.0
CD A:GLU24 3.1 35.9 1.0
ND1 A:HIS63 3.2 36.1 1.0
OE2 A:GLU24 3.4 43.6 1.0
CG A:HIS63 3.5 32.8 1.0
CB A:HIS63 3.6 24.9 1.0
CG A:GLU60 3.9 29.6 1.0
CE1 A:HIS63 4.0 45.2 1.0
OE1 A:GLN139 4.1 24.9 1.0
CG1 A:VAL108 4.3 27.6 1.0
CD2 A:HIS63 4.4 37.3 1.0
CG A:GLU24 4.5 25.4 1.0
CA A:GLU60 4.5 26.4 1.0
NE2 A:HIS63 4.7 44.0 1.0
CB A:GLU60 4.7 26.6 1.0
NE2 A:GLN139 4.7 23.3 1.0
CD A:GLN139 4.8 26.3 1.0
CB A:GLU24 4.8 27.1 1.0
CD1 A:TYR135 4.9 21.7 1.0

Iron binding site 3 out of 6 in 7cpc

Go back to Iron Binding Sites List in 7cpc
Iron binding site 3 out of 6 in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe202

b:46.7
occ:1.00
 OE1 C:GLU60 2.0 25.4 1.0
OE1 C:GLU24 2.2 28.6 1.0
ND1 C:HIS63 2.7 35.5 1.0
CD C:GLU24 3.0 24.9 1.0
CD C:GLU60 3.0 28.6 1.0
OE2 C:GLU24 3.1 26.2 1.0
OE2 C:GLU60 3.3 30.8 1.0
CG C:HIS63 3.4 28.9 1.0
CE1 C:HIS63 3.4 40.6 1.0
CB C:HIS63 3.7 25.0 1.0
OE1 C:GLN139 4.0 28.2 1.0
CG1 C:VAL108 4.2 16.2 1.0
NE2 C:HIS63 4.3 41.0 1.0
CG C:GLU60 4.4 22.9 1.0
CD2 C:HIS63 4.4 31.2 1.0
CG C:GLU24 4.4 23.5 1.0
CA C:GLU60 4.5 23.3 1.0
CB C:GLU60 4.7 22.4 1.0
CD C:GLN139 4.8 22.1 1.0
NE2 C:GLN139 4.9 18.7 1.0
CB C:GLU24 5.0 18.7 1.0

Iron binding site 4 out of 6 in 7cpc

Go back to Iron Binding Sites List in 7cpc
Iron binding site 4 out of 6 in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:41.8
occ:1.00
 OE2 D:GLU60 2.0 34.2 1.0
OE1 D:GLU24 2.2 36.5 1.0
OE1 D:GLU60 2.4 43.9 1.0
CD D:GLU60 2.5 35.3 1.0
ND1 D:HIS63 2.9 34.4 1.0
CD D:GLU24 3.2 28.2 1.0
OE2 D:GLU24 3.4 23.6 1.0
NE2 D:GLN139 3.4 21.9 1.0
CG D:HIS63 3.6 36.5 1.0
CE1 D:HIS63 3.7 46.9 1.0
CB D:HIS63 3.8 28.2 1.0
CG D:GLU60 3.9 18.8 1.0
CG1 D:VAL108 4.4 20.0 1.0
CA D:GLU60 4.5 23.4 1.0
CD2 D:HIS63 4.5 38.2 1.0
CG D:GLU24 4.5 28.6 1.0
NE2 D:HIS63 4.6 45.5 1.0
CD D:GLN139 4.6 18.2 1.0
CB D:GLU60 4.6 21.1 1.0
CD1 D:TYR135 4.9 27.6 1.0
CB D:GLU24 4.9 28.9 1.0

Iron binding site 5 out of 6 in 7cpc

Go back to Iron Binding Sites List in 7cpc
Iron binding site 5 out of 6 in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe203

b:49.6
occ:1.00
 OE1 E:GLU60 2.1 20.4 1.0
OE1 E:GLU24 2.1 38.2 1.0
CD E:GLU60 2.8 30.2 1.0
CD E:GLU24 2.9 33.6 1.0
OE2 E:GLU24 3.0 38.5 1.0
ND1 E:HIS63 3.1 43.7 1.0
OE2 E:GLU60 3.1 41.5 1.0
CB E:HIS63 3.8 32.9 1.0
CG E:HIS63 3.9 35.8 1.0
CE1 E:HIS63 4.1 47.1 1.0
OE1 E:GLN139 4.2 29.1 1.0
CG1 E:VAL108 4.2 30.5 1.0
CG E:GLU60 4.2 24.9 1.0
CG E:GLU24 4.3 24.0 1.0
CA E:GLU60 4.4 28.9 1.0
CB E:GLU60 4.5 32.6 1.0
CB E:GLU24 4.8 26.9 1.0
NE2 E:GLN139 5.0 27.5 1.0
CD E:GLN139 5.0 32.4 1.0

Iron binding site 6 out of 6 in 7cpc

Go back to Iron Binding Sites List in 7cpc
Iron binding site 6 out of 6 in the His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of His-Mediated Reversible Self-Assembly of Ferritin Nanocage with Ni Binding within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe201

b:46.5
occ:1.00
 OE1 F:GLU60 1.9 41.5 1.0
OE1 F:GLU24 2.2 40.4 1.0
OE2 F:GLU60 2.5 37.2 1.0
CD F:GLU60 2.5 38.8 1.0
CD F:GLU24 3.1 31.4 1.0
ND1 F:HIS63 3.3 47.8 1.0
OE2 F:GLU24 3.4 31.4 1.0
CB F:HIS63 3.9 38.0 1.0
CG1 F:VAL108 3.9 23.5 1.0
OE1 F:GLN139 3.9 24.5 1.0
CG F:GLU60 4.0 20.6 1.0
CG F:HIS63 4.1 47.3 1.0
CE1 F:HIS63 4.4 46.7 1.0
CG F:GLU24 4.4 28.8 1.0
OE1 F:GLU105 4.7 40.3 1.0
CA F:GLU60 4.7 32.3 1.0
CB F:GLU60 4.7 25.8 1.0
CD F:GLN139 4.7 28.4 1.0
CB F:GLU24 4.8 26.3 1.0
NE2 F:GLN139 4.8 25.2 1.0
CB F:VAL108 5.0 20.9 1.0

Reference:

C.Gu, T.Zhang, C.Lv, Y.Liu, Y.Wang, G.Zhao. His-Mediated Reversible Self-Assembly of Ferritin Nanocages Through Two Different Switches For Encapsulation of Cargo Molecules. Acs Nano 2020.
ISSN: ESSN 1936-086X
PubMed: 33197176
DOI: 10.1021/ACSNANO.0C06670
Page generated: Thu Aug 8 03:17:26 2024

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