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Magnesium in PDB 5c8s: Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa

Protein crystallography data

The structure of Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa, PDB code: 5c8s was solved by Y.Y.Ma, L.J.Wu, R.G.Zhang, Z.H.Rao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.56 / 3.33
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 188.797, 196.840, 180.100, 90.00, 90.00, 90.00
R / Rfree (%) 21.7 / 25.9

Other elements in 5c8s:

The structure of Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa also contains other interesting chemical elements:

Zinc (Zn) 10 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa (pdb code 5c8s). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa, PDB code: 5c8s:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5c8s

Go back to Magnesium Binding Sites List in 5c8s
Magnesium binding site 1 out of 2 in the Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg604

b:0.2
occ:1.00
OE1 B:GLU191 2.1 0.6 1.0
OD1 B:ASP90 2.2 0.9 1.0
CD B:GLU191 2.9 0.7 1.0
OE2 B:GLU191 3.0 0.4 1.0
O B:ALA187 3.3 1.0 1.0
CG B:ASP90 3.4 0.9 1.0
CB B:ALA187 3.8 0.9 1.0
N B:ALA187 4.1 0.1 1.0
C B:ALA187 4.2 0.2 1.0
CB B:ASP90 4.2 0.1 1.0
CA B:ALA187 4.3 0.3 1.0
CG B:GLU191 4.3 98.5 1.0
OD2 B:ASP90 4.3 0.3 1.0
CA B:ASP90 4.5 0.4 1.0
O B:VAL91 4.7 0.8 1.0
N B:VAL91 4.7 0.9 1.0

Magnesium binding site 2 out of 2 in 5c8s

Go back to Magnesium Binding Sites List in 5c8s
Magnesium binding site 2 out of 2 in the Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the Sars Coronavirus NSP14-NSP10 Complex with Functional Ligands Sah and Gpppa within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg604

b:0.2
occ:1.00
OD1 D:ASP90 2.1 0.9 1.0
OE1 D:GLU191 2.2 0.9 1.0
CD D:GLU191 2.9 0.7 1.0
OE2 D:GLU191 3.0 0.7 1.0
CG D:ASP90 3.3 0.2 1.0
O D:ALA187 4.0 0.2 1.0
CB D:ASP90 4.2 0.6 1.0
OD2 D:ASP90 4.2 0.1 1.0
CG D:GLU191 4.3 0.9 1.0
O D:VAL91 4.5 0.0 1.0
CA D:ASP90 4.5 0.7 1.0
N D:VAL91 4.5 0.8 1.0
N D:ALA187 4.6 0.7 1.0
CB D:ALA187 4.9 0.9 1.0
C D:ALA187 4.9 0.3 1.0
C D:ASP90 4.9 0.7 1.0

Reference:

Y.Y.Ma, L.J.Wu, N.Shaw, Y.Gao, J.Wang, Y.N.Sun, Z.Y.Lou, L.M.Yan, R.G.Zhang, Z.H.Rao. Structural Basis and Functional Analysis of the Sars Coronavirus NSP14-NSP10 Complex Proc.Natl.Acad.Sci.Usa V. 112 9436 2015.
ISSN: ESSN 1091-6490
PubMed: 26159422
DOI: 10.1073/PNAS.1508686112
Page generated: Mon Dec 14 20:05:54 2020

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