Potassium in PDB 5dea: Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form.

The structure of Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form., PDB code: 5dea was solved by N.Vasilyev, A.Polonskaia, J.C.Darnell, R.B.Darnell, D.J.Patel, A.Serganov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.87 / 2.80
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	56.570, 129.870, 36.790, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 22.6

The structure of Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form. also contains other interesting chemical elements:

Caesium

(Cs)

3 atoms

The binding sites of Potassium atom in the Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form. (pdb code 5dea). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form., PDB code: 5dea:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in the Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form. within 5.0Å range: probe atom residue distance (Å) B Occ A:K101 b:8.8 occ:1.00 O6 A:G12 2.6 16.6 1.0 O6 A:G20 2.6 17.0 1.0 O6 A:G24 2.6 10.1 1.0 O6 A:G15 2.6 25.6 1.0 O6 A:G21 2.7 7.6 1.0 O6 A:G11 2.8 25.5 1.0 O6 A:G16 2.8 16.0 1.0 O6 A:G25 3.0 22.4 1.0 K A:K102 3.3 11.9 1.0 C6 A:G12 3.5 23.4 1.0 C6 A:G15 3.6 23.1 1.0 C6 A:G21 3.6 7.7 1.0 C6 A:G20 3.6 13.6 1.0 C6 A:G24 3.6 16.0 1.0 C6 A:G11 3.7 23.5 1.0 C6 A:G16 3.8 13.4 1.0 C6 A:G25 3.8 21.2 1.0 N1 A:G15 3.8 13.6 1.0 N1 A:G12 3.9 30.2 1.0 N1 A:G25 3.9 19.6 1.0 N1 A:G11 3.9 23.8 1.0 N1 A:G24 3.9 15.4 1.0 N1 A:G20 3.9 13.2 1.0 N1 A:G21 4.0 7.8 1.0 N1 A:G16 4.0 13.3 1.0 C5 A:G12 4.7 21.0 1.0 C5 A:G21 4.8 7.8 1.0 C5 A:G15 4.9 21.8 1.0 C5 A:G20 4.9 12.1 1.0 C5 A:G24 5.0 17.3 1.0 O6 A:G6 5.0 19.3 1.0

Potassium binding site 2 out of 4 in the Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form. within 5.0Å range: probe atom residue distance (Å) B Occ A:K102 b:11.9 occ:1.00 O6 A:G6 2.7 19.3 1.0 O6 A:G26 2.8 17.6 1.0 O6 A:G12 2.8 16.6 1.0 O6 A:G18 2.8 13.5 1.0 O6 A:G21 2.8 7.6 1.0 O6 A:G9 2.9 13.2 1.0 O6 A:G25 2.9 22.4 1.0 O6 A:G16 3.0 16.0 1.0 K A:K101 3.3 8.8 1.0 C6 A:G26 3.6 18.9 1.0 C6 A:G9 3.6 16.1 1.0 C6 A:G21 3.7 7.7 1.0 C6 A:G18 3.7 10.2 1.0 C6 A:G12 3.7 23.4 1.0 C6 A:G6 3.7 23.9 1.0 C6 A:G25 3.7 21.2 1.0 CS A:CS103 3.7 42.8 0.5 N1 A:G26 3.7 18.7 1.0 C6 A:G16 3.8 13.4 1.0 N1 A:G9 3.8 16.6 1.0 N1 A:G21 3.9 7.8 1.0 N1 A:G12 3.9 30.2 1.0 N1 A:G25 3.9 19.6 1.0 N1 A:G6 3.9 21.0 1.0 N1 A:G18 4.0 7.3 1.0 N1 A:G16 4.1 13.3 1.0 C5 A:G18 4.8 10.3 1.0 C5 A:G9 4.9 23.1 1.0 C5 A:G21 4.9 7.8 1.0 C5 A:G26 4.9 14.4 1.0 O6 A:G24 4.9 10.1 1.0 C5 A:G12 4.9 21.0 1.0 C5 A:G16 4.9 13.3 1.0 C5 A:G25 5.0 18.8 1.0 C2 A:G26 5.0 10.8 1.0 O6 A:G15 5.0 25.6 1.0

Potassium binding site 3 out of 4 in the Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form. within 5.0Å range: probe atom residue distance (Å) B Occ C:K101 b:19.4 occ:1.00 O6 C:G6 2.7 28.3 1.0 O6 C:G26 2.7 23.8 1.0 O6 C:G18 2.8 27.1 1.0 O6 C:G12 2.8 23.3 1.0 O6 C:G25 2.9 17.4 1.0 O6 C:G9 3.0 17.7 1.0 O6 C:G21 3.0 24.1 1.0 O6 C:G16 3.2 22.9 1.0 K C:K102 3.3 25.3 1.0 C6 C:G18 3.6 22.9 1.0 C6 C:G12 3.6 14.5 1.0 C6 C:G26 3.6 25.6 1.0 C6 C:G6 3.7 12.5 1.0 C6 C:G25 3.7 18.7 1.0 CS C:CS103 3.7 41.3 0.5 N1 C:G12 3.8 19.1 1.0 C6 C:G9 3.8 14.1 1.0 N1 C:G26 3.8 17.4 1.0 C6 C:G21 3.8 24.0 1.0 C6 C:G16 3.9 16.7 1.0 N1 C:G21 3.9 28.5 1.0 N1 C:G18 4.0 19.4 1.0 N1 C:G9 4.0 13.3 1.0 N1 C:G25 4.0 25.5 1.0 N1 C:G6 4.0 12.8 1.0 N1 C:G16 4.2 13.8 1.0 C5 C:G18 4.7 19.9 1.0 C5 C:G12 4.9 15.2 1.0 C5 C:G26 4.9 23.2 1.0 C5 C:G25 5.0 20.7 1.0 C2 C:G12 5.0 13.8 1.0

Potassium binding site 4 out of 4 in the Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of the Complex Between Human Fmrp Rgg Motif and G- Quadruplex Rna, Cesium Bound Form. within 5.0Å range: probe atom residue distance (Å) B Occ C:K102 b:25.3 occ:1.00 O6 C:G20 2.6 41.0 1.0 O6 C:G15 2.7 19.2 1.0 O6 C:G24 2.8 33.9 1.0 O6 C:G12 2.8 23.3 1.0 O6 C:G16 2.8 22.9 1.0 O6 C:G11 2.8 27.8 1.0 O6 C:G21 2.9 24.1 1.0 O6 C:G25 3.1 17.4 1.0 K C:K101 3.3 19.4 1.0 C6 C:G12 3.5 14.5 1.0 C6 C:G20 3.6 28.2 1.0 C6 C:G11 3.7 19.2 1.0 C6 C:G24 3.7 32.1 1.0 C6 C:G15 3.7 17.4 1.0 N1 C:G11 3.7 18.0 1.0 N1 C:G12 3.7 19.1 1.0 C6 C:G16 3.8 16.7 1.0 C6 C:G21 3.8 24.0 1.0 N1 C:G20 3.9 26.6 1.0 C6 C:G25 3.9 18.7 1.0 N1 C:G24 3.9 32.7 1.0 N1 C:G25 4.0 25.5 1.0 N1 C:G16 4.0 13.8 1.0 N1 C:G21 4.1 28.5 1.0 N1 C:G15 4.1 13.9 1.0 C5 C:G12 4.8 15.2 1.0 C5 C:G15 4.9 21.0 1.0 C5 C:G20 4.9 22.5 1.0 O6 C:G6 4.9 28.3 1.0 C2 C:G12 5.0 13.8 1.0 C5 C:G21 5.0 22.0 1.0

N.Vasilyev, A.Polonskaia, J.C.Darnell, R.B.Darnell, D.J.Patel, A.Serganov. Crystal Structure Reveals Specific Recognition of A G-Quadruplex Rna By A Beta-Turn in the Rgg Motif of Fmrp. Proc.Natl.Acad.Sci.Usa V. 112 E5391 2015.
ISSN: ESSN 1091-6490
PubMed: 26374839
DOI: 10.1073/PNAS.1515737112