Potassium in PDB 7mky: Sars-Cov-2 Frameshifting Pseudoknot Rna

Protein crystallography data

The structure of Sars-Cov-2 Frameshifting Pseudoknot Rna, PDB code: 7mky was solved by C.P.Jones, A.R.Ferre-D'amare, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.43 / 1.31
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 113.371, 39.206, 38.803, 90, 97.98, 90
R / Rfree (%) 15.4 / 18.8

Other elements in 7mky:

The structure of Sars-Cov-2 Frameshifting Pseudoknot Rna also contains other interesting chemical elements:

Magnesium (Mg) 9 atoms
Sodium (Na) 4 atoms
Cobalt (Co) 1 atom

Potassium Binding Sites:

The binding sites of Potassium atom in the Sars-Cov-2 Frameshifting Pseudoknot Rna (pdb code 7mky). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Sars-Cov-2 Frameshifting Pseudoknot Rna, PDB code: 7mky:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in 7mky

Go back to Potassium Binding Sites List in 7mky
Potassium binding site 1 out of 2 in the Sars-Cov-2 Frameshifting Pseudoknot Rna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Sars-Cov-2 Frameshifting Pseudoknot Rna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K102

b:18.4
occ:1.00
O6 A:G55 2.7 14.5 1.0
O6 A:G30 2.8 15.5 1.0
O A:HOH366 2.8 21.2 1.0
O4 A:U56 2.9 16.3 1.0
O4 A:U29 2.9 18.3 1.0
O A:HOH289 3.0 29.5 1.0
N4 A:C31 3.7 15.5 1.0
O A:HOH439 3.7 39.9 1.0
C4 A:U56 3.7 16.5 1.0
C4 A:U29 3.8 17.4 1.0
N3 A:U56 3.9 16.0 1.0
C6 A:G55 3.9 13.5 1.0
C6 A:G30 3.9 17.0 1.0
O A:HOH250 3.9 30.3 1.0
N6 A:A57 4.0 14.2 0.6
O A:HOH436 4.0 27.2 1.0
O A:HOH369 4.1 21.1 1.0
N7 A:G30 4.3 18.1 1.0
N6 A:A57 4.4 19.4 0.4
MG A:MG106 4.4 29.6 1.0
C5 A:G30 4.5 16.6 1.0
C5 A:U29 4.5 17.6 1.0
N3 A:U29 4.6 18.7 1.0
C4 A:C31 4.7 14.7 1.0
O A:HOH235 4.7 28.3 1.0
O A:HOH465 4.7 39.6 1.0
N1 A:G55 4.7 13.5 1.0
C5 A:G55 4.8 14.9 1.0
O A:HOH418 4.8 30.6 1.0
C6 A:A57 4.9 15.5 0.6
N4 A:C54 4.9 15.3 1.0
N7 A:G55 5.0 14.9 1.0

Potassium binding site 2 out of 2 in 7mky

Go back to Potassium Binding Sites List in 7mky
Potassium binding site 2 out of 2 in the Sars-Cov-2 Frameshifting Pseudoknot Rna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Sars-Cov-2 Frameshifting Pseudoknot Rna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K103

b:34.0
occ:1.00
O6 A:G33 2.7 14.8 1.0
O A:HOH359 2.9 23.1 1.0
O4 A:U53 2.9 16.5 1.0
O6 A:G32 3.0 16.8 1.0
O A:HOH464 3.1 34.4 1.0
O A:HOH439 3.2 39.9 1.0
O A:HOH298 3.2 32.0 1.0
O A:HOH377 3.6 22.2 1.0
N4 A:C54 3.7 15.3 1.0
C6 A:G33 3.8 13.3 1.0
O6 A:G52 3.8 15.3 1.0
C4 A:U53 3.8 15.9 1.0
N3 A:U53 3.9 14.8 1.0
N4 A:C34 4.0 15.3 1.0
C6 A:G32 4.0 16.2 1.0
O A:HOH313 4.1 23.6 1.0
N7 A:G33 4.2 14.9 1.0
O A:HOH451 4.3 28.1 1.0
O A:HOH418 4.3 30.6 1.0
C5 A:G33 4.4 13.8 1.0
N4 A:C31 4.7 15.5 1.0
C4 A:C54 4.7 15.2 1.0
O A:HOH425 4.8 22.6 1.0
C6 A:G52 4.8 13.5 1.0
C5 A:G32 4.8 15.2 1.0
C4 A:C34 4.8 13.6 1.0
N1 A:G32 4.9 14.5 1.0
N7 A:G32 5.0 16.6 1.0
N1 A:G33 5.0 13.9 1.0

Reference:

C.P.Jones, A.R.Ferre-D'amare. Sars-Cov-2 Frameshifting Pseudoknot Rna To Be Published.
Page generated: Sat Jul 10 16:27:19 2021

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