Atomistry » Potassium » PDB 6xv4-7acc » 6zxz
Atomistry »
  Potassium »
    PDB 6xv4-7acc »
      6zxz »

Potassium in PDB 6zxz: Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification

Protein crystallography data

The structure of Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification, PDB code: 6zxz was solved by E.Ennifar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.97 / 2.44
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 62.412, 75.267, 52.981, 90.00, 105.60, 90.00
R / Rfree (%) 21.1 / 23.2

Other elements in 6zxz:

The structure of Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification also contains other interesting chemical elements:

Fluorine (F) 9 atoms
Sodium (Na) 4 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification (pdb code 6zxz). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification, PDB code: 6zxz:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 6zxz

Go back to Potassium Binding Sites List in 6zxz
Potassium binding site 1 out of 4 in the Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K2701

b:63.7
occ:1.00
O A:HOH2804 3.1 33.6 1.0
N7 A:G2668 3.5 32.5 1.0
OP2 A:C2667 3.5 30.5 1.0
OP2 A:G2668 3.6 33.1 1.0
C8 A:G2668 4.0 32.3 1.0
P A:C2667 4.2 32.5 1.0
O5' A:C2667 4.3 33.3 1.0
OP1 A:C2667 4.4 39.8 1.0
C5 A:G2668 4.5 32.7 1.0
O A:HOH2806 4.7 27.3 1.0
N7 A:G2669 4.7 32.7 1.0
P A:G2668 4.9 36.9 1.0
O5' A:G2668 4.9 35.3 1.0
O6 A:G2668 5.0 30.4 1.0

Potassium binding site 2 out of 4 in 6zxz

Go back to Potassium Binding Sites List in 6zxz
Potassium binding site 2 out of 4 in the Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K2702

b:75.0
occ:1.00
OP1 A:A2665 3.5 40.7 1.0
OP2 A:U2650 3.9 36.0 1.0
OP1 A:C2666 4.1 40.8 1.0
O3' A:A2665 4.3 35.8 1.0
C5' A:A2665 4.4 36.5 1.0
P A:C2666 4.8 33.8 1.0
P A:A2665 4.8 36.0 1.0
C4' A:A2665 4.8 35.1 1.0

Potassium binding site 3 out of 4 in 6zxz

Go back to Potassium Binding Sites List in 6zxz
Potassium binding site 3 out of 4 in the Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K2701

b:60.9
occ:1.00
O B:HOH2801 3.6 32.0 1.0
OP1 B:A2665 3.6 38.5 1.0
O B:HOH2817 3.9 30.1 1.0
OP2 B:U2650 4.1 32.9 1.0
OP1 B:C2666 4.2 35.3 1.0
O3' B:A2665 4.5 36.5 1.0
O B:HOH2807 4.5 33.1 1.0
C5' B:A2665 4.6 36.7 1.0
O B:HOH2804 4.8 30.3 1.0
P B:C2666 4.9 37.1 1.0
P B:A2665 5.0 39.6 1.0

Potassium binding site 4 out of 4 in 6zxz

Go back to Potassium Binding Sites List in 6zxz
Potassium binding site 4 out of 4 in the Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Sarcin-Ricin Loop Rna From Ecoli with A A2670-2'-OCF3 Modification within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K2701

b:77.7
occ:1.00
OP2 C:C2667 3.5 35.2 1.0
N7 C:G2668 3.8 35.6 1.0
P C:C2667 4.4 34.7 1.0
O6 C:G2668 4.4 35.3 1.0
OP2 C:G2668 4.4 36.2 1.0
C5 C:G2668 4.6 34.4 1.0
O5' C:C2667 4.6 39.0 1.0
C8 C:G2668 4.6 34.0 1.0
OP1 C:C2667 4.6 37.7 1.0
C6 C:G2668 4.8 32.6 1.0

Reference:

M.Himmelstoss, K.Erharter, E.Renard, E.Ennifar, C.Kreutz, R.Micura. 2'-O-Trifluoromethylated Rna - A Powerful Modification For Rna Chemistry and uc(Nmr) Spectroscopy Chem Sci 2020.
ISSN: ESSN 2041-6539
DOI: 10.1039/D0SC04520A
Page generated: Thu Dec 17 11:57:37 2020

Last articles

Tb in 6TVY
Si in 6Y7O
Rh in 6WRM
Rh in 6WRL
Ni in 6Y8Z
Ni in 6Y8Y
Na in 6ZXZ
Na in 7ACG
Na in 6YLS
Na in 6Y8Z
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy