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Sodium in PDB 5up8: Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate

Enzymatic activity of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate

All present enzymatic activity of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate:
1.16.3.1;

Protein crystallography data

The structure of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate, PDB code: 5up8 was solved by J.B.Bailey, L.Zhang, J.C.Chiong, S.Ahn, F.A.Tezcan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.27 / 2.63
Space group I 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 155.810, 155.810, 155.810, 90.00, 90.00, 90.00
R / Rfree (%) 20.9 / 26.2

Other elements in 5up8:

The structure of Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate also contains other interesting chemical elements:

Zinc (Zn) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate (pdb code 5up8). 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 the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate, PDB code: 5up8:

Sodium binding site 1 out of 1 in 5up8

Go back to Sodium Binding Sites List in 5up8
Sodium binding site 1 out of 1 in the Crystal Structure of the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate


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 the Zn-Bound Human Heavy-Chain Variant 122H-Delta C-Star with Para-Benzenedihydroxamate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na204

b:71.6
occ:0.33
OE2 A:GLU134 2.3 84.7 1.0
OD1 A:ASP131 2.4 0.0 1.0
CG A:ASP131 3.5 0.2 1.0
CD A:GLU134 3.5 96.8 1.0
CB A:ASP131 3.9 0.4 1.0
OE1 A:GLU134 4.2 95.3 1.0
CA A:ASP131 4.4 0.9 1.0
CB A:GLU134 4.6 86.4 1.0
OD2 A:ASP131 4.6 0.7 1.0
CG A:GLU134 4.7 83.7 1.0
CG2 A:THR135 5.0 77.1 1.0

Reference:

J.B.Bailey, L.Zhang, J.A.Chiong, S.Ahn, F.A.Tezcan. Synthetic Modularity of Protein-Metal-Organic Frameworks. J. Am. Chem. Soc. V. 139 8160 2017.
ISSN: ESSN 1520-5126
PubMed: 28590729
DOI: 10.1021/JACS.7B01202
Page generated: Tue Dec 15 11:42:56 2020

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