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Potassium in PDB 4xk0: Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium

Protein crystallography data

The structure of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium, PDB code: 4xk0 was solved by M.C.Chen, P.Murat, K.A.Abecassis, A.R.Ferre-D'amare, S.Balasubramanian, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.54 / 1.08
Space group P 4
Cell size a, b, c (Å), α, β, γ (°) 33.133, 33.133, 54.843, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Other elements in 4xk0:

The structure of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium also contains other interesting chemical elements:

Barium (Ba) 3 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium (pdb code 4xk0). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 9 binding sites of Potassium where determined in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium, PDB code: 4xk0:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Potassium binding site 1 out of 9 in 4xk0

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Potassium binding site 1 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


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Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K101

b:4.2
occ:0.26
 O6 A:G1 2.7 3.9 1.0
O6 C:G-2 3.1 3.9 1.0
K A:K105 3.1 5.3 0.0
H1 A:G1 3.4 4.9 1.0
K C:K101 3.5 4.0 0.3
H1 C:G-2 3.7 5.2 1.0
C6 A:G1 3.7 4.6 1.0
C6 C:G-2 3.8 4.5 1.0
N1 A:G1 3.9 4.0 1.0
N1 C:G-2 4.0 4.3 1.0
C5 C:G-2 5.0 4.3 1.0

Potassium binding site 2 out of 9 in 4xk0

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Potassium binding site 2 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


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Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K102

b:4.2
occ:0.26
 O6 A:G2 2.7 4.5 1.0
O6 A:G3 3.0 4.2 1.0
H1 A:G2 3.4 5.0 1.0
K A:K103 3.4 4.2 0.3
K A:K105 3.5 5.3 0.0
C6 A:G2 3.6 4.5 1.0
H1 A:G3 3.8 5.3 1.0
C6 A:G3 3.8 4.6 1.0
N1 A:G2 3.9 4.1 1.0
N1 A:G3 4.1 4.4 1.0
C5 A:G2 4.9 4.4 1.0
C5 A:G3 4.9 4.6 1.0

Potassium binding site 3 out of 9 in 4xk0

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Potassium binding site 3 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


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 A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K103

b:4.2
occ:0.27
 O6 A:G3 2.7 4.2 1.0
O6 A:G4 2.8 4.3 1.0
K A:K104 3.3 4.3 0.2
K A:K102 3.4 4.2 0.3
H1 A:G3 3.5 5.3 1.0
C6 A:G3 3.6 4.6 1.0
H1 A:G4 3.6 5.4 1.0
C6 A:G4 3.7 4.9 1.0
N1 A:G3 3.9 4.4 1.0
N1 A:G4 4.0 4.5 1.0
C5 A:G3 4.8 4.6 1.0
C5 A:G4 5.0 4.9 1.0

Potassium binding site 4 out of 9 in 4xk0

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Potassium binding site 4 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


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 A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K104

b:4.3
occ:0.24
 O4 A:U5 2.7 5.2 1.0
O6 A:G4 2.9 4.3 1.0
K A:K103 3.3 4.2 0.3
H3 A:U5 3.3 6.8 1.0
H1 A:G4 3.6 5.4 1.0
C6 A:G4 3.7 4.9 1.0
C4 A:U5 3.7 5.8 1.0
N3 A:U5 3.9 5.7 1.0
N1 A:G4 3.9 4.5 1.0
C5 A:G4 4.8 4.9 1.0

Potassium binding site 5 out of 9 in 4xk0

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Potassium binding site 5 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K105

b:5.3
occ:0.04
 K A:K101 3.1 4.2 0.3
O6 A:G1 3.1 3.9 1.0
O6 A:G2 3.3 4.5 1.0
K A:K102 3.5 4.2 0.3
H1 A:G1 3.6 4.9 1.0
C6 A:G1 3.8 4.6 1.0
H1 A:G2 3.8 5.0 1.0
N1 A:G1 4.0 4.0 1.0
C6 A:G2 4.0 4.5 1.0
N1 A:G2 4.2 4.1 1.0
C5 A:G1 4.9 4.5 1.0

Potassium binding site 6 out of 9 in 4xk0

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Potassium binding site 6 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K101

b:4.0
occ:0.26
 O6 C:G-2 2.7 3.9 1.0
O6 C:G-1 3.0 3.7 1.0
K C:K102 3.3 4.0 0.2
K A:K101 3.5 4.2 0.3
H1 C:G-2 3.5 5.2 1.0
H1 C:G-1 3.7 4.9 1.0
C6 C:G-2 3.7 4.5 1.0
C6 C:G-1 3.7 4.4 1.0
N1 C:G-2 4.0 4.3 1.0
N1 C:G-1 4.0 4.1 1.0
C5 C:G-1 4.9 4.2 1.0
C5 C:G-2 4.9 4.3 1.0

Potassium binding site 7 out of 9 in 4xk0

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Potassium binding site 7 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K102

b:4.0
occ:0.25
 O6 C:G-1 2.7 3.7 1.0
O6 C:G0 2.9 3.6 1.0
K C:K103 3.3 4.0 0.3
K C:K101 3.3 4.0 0.3
H1 C:G-1 3.5 4.9 1.0
C6 C:G-1 3.6 4.4 1.0
H1 C:G0 3.7 4.8 1.0
C6 C:G0 3.7 4.5 1.0
N1 C:G-1 4.0 4.1 1.0
N1 C:G0 4.0 4.0 1.0
C5 C:G0 4.9 4.2 1.0
C5 C:G-1 4.9 4.2 1.0

Potassium binding site 8 out of 9 in 4xk0

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Potassium binding site 8 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K103

b:4.0
occ:0.27
 O6 C:G0 2.7 3.6 1.0
O6 C:G1 2.7 3.8 1.0
K C:K102 3.3 4.0 0.2
K C:K104 3.4 4.0 0.2
H1 C:G0 3.5 4.8 1.0
H1 C:G1 3.6 4.9 1.0
C6 C:G0 3.6 4.5 1.0
C6 C:G1 3.7 4.4 1.0
N1 C:G0 3.9 4.0 1.0
N1 C:G1 4.0 4.1 1.0
C5 C:G0 4.9 4.2 1.0
C5 C:G1 5.0 4.8 1.0

Potassium binding site 9 out of 9 in 4xk0

Go back to Potassium Binding Sites List in 4xk0
Potassium binding site 9 out of 9 in the Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Crystal Structure of A Tetramolecular Rna G-Quadruplex in Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K104

b:4.0
occ:0.24
 O4 C:U2 2.7 5.6 1.0
O6 C:G1 3.0 3.8 1.0
H3 C:U2 3.3 7.1 1.0
K C:K103 3.4 4.0 0.3
H1 C:G1 3.6 4.9 1.0
C4 C:U2 3.7 5.6 1.0
C6 C:G1 3.7 4.4 1.0
N3 C:U2 3.9 5.9 1.0
N1 C:G1 4.0 4.1 1.0
C5 C:G1 4.9 4.8 1.0

Reference:

M.C.Chen, P.Murat, K.A.Abecassis, A.R.Ferre-D'amare, S.Balasubramanian. Insights Into the Mechanism of A G-Quadruplex-Unwinding Deah-Box Helicase Nucleic Acids Res. 2015.
ISSN: ESSN 1362-4962
DOI: 10.1093/NAR/GKV051
Page generated: Mon Aug 12 12:35:52 2024

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