Sodium in PDB 7bom: Crystal Structure of Recombinant Horse Spleen Apo-R52C/E56C/R59C/E63C- Fr Immobilized with Gold Ions.

Protein crystallography data

The structure of Crystal Structure of Recombinant Horse Spleen Apo-R52C/E56C/R59C/E63C- Fr Immobilized with Gold Ions., PDB code: 7bom was solved by Y.Hishikawa, B.Maity, N.Ito, S.Abe, D.Lu, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.73 / 1.93
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 181.716, 181.716, 181.716, 90, 90, 90
R / Rfree (%) 16.3 / 19.6

Other elements in 7bom:

The structure of Crystal Structure of Recombinant Horse Spleen Apo-R52C/E56C/R59C/E63C- Fr Immobilized with Gold Ions. also contains other interesting chemical elements:

Gold (Au) 12 atoms
Chlorine (Cl) 1 atom
Cadmium (Cd) 5 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Recombinant Horse Spleen Apo-R52C/E56C/R59C/E63C- Fr Immobilized with Gold Ions. (pdb code 7bom). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Recombinant Horse Spleen Apo-R52C/E56C/R59C/E63C- Fr Immobilized with Gold Ions., PDB code: 7bom:

Sodium binding site 1 out of 1 in 7bom

Go back to Sodium Binding Sites List in 7bom
Sodium binding site 1 out of 1 in the Crystal Structure of Recombinant Horse Spleen Apo-R52C/E56C/R59C/E63C- Fr Immobilized with Gold Ions.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Recombinant Horse Spleen Apo-R52C/E56C/R59C/E63C- Fr Immobilized with Gold Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Na221

b:43.5
occ:1.00
O2 X:SO4218 1.9 85.5 1.0
S X:SO4218 3.3 76.8 1.0
CB X:ASN7 3.5 23.9 1.0
N X:ASN7 3.7 21.1 1.0
O1 X:SO4218 3.8 77.2 1.0
CA X:ASN7 3.8 21.9 1.0
OD1 X:ASN7 3.9 28.9 1.0
O4 X:SO4218 3.9 78.7 1.0
CG X:ASN7 4.0 26.4 1.0
CG X:GLN6 4.0 26.6 1.0
O3 X:SO4218 4.2 73.4 1.0
C X:GLN6 4.5 24.4 1.0
NE2 X:GLN6 4.8 25.5 1.0
CD X:GLN6 4.9 27.4 1.0
ND2 X:ASN7 5.0 24.4 1.0

Reference:

Y.Hishikawa, B.Maity, N.Ito, S.Abe, D.Lu, T.Ueno. Design of Multinuclear Gold Binding Site at the Two-Fold Symmetric Interface of the Ferritin Cage Chem Lett. V. 49 840 2021.
ISSN: ESSN 1348-0715
DOI: 10.1246/CL.200217
Page generated: Wed Mar 3 15:32:48 2021

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