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Potassium in PDB 5fkg: Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg

Protein crystallography data

The structure of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg, PDB code: 5fkg was solved by L.Huang, D.M.J.Lilley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 57.01 / 2.95
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 61.252, 61.252, 155.969, 90.00, 90.00, 90.00
R / Rfree (%) 23.4 / 29.9

Other elements in 5fkg:

The structure of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg also contains other interesting chemical elements:

Barium (Ba) 13 atoms
Sodium (Na) 4 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg (pdb code 5fkg). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg, PDB code: 5fkg:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in 5fkg

Go back to Potassium Binding Sites List in 5fkg
Potassium binding site 1 out of 2 in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1112

b:0.6
occ:1.00
O4 A:U5 3.0 0.7 1.0
O6 A:G89 3.1 68.7 1.0
O4 A:U88 3.4 0.8 1.0
O4 A:U4 3.5 72.8 1.0
N6 A:A90 4.0 65.6 1.0
C4 A:U5 4.1 0.7 1.0
C4 A:U88 4.3 72.5 1.0
C6 A:G89 4.3 70.7 1.0
N6 A:A6 4.3 81.7 1.0
C4 A:U4 4.4 86.0 1.0
N3 A:U5 4.7 0.2 1.0
C5 A:U88 4.9 61.9 1.0

Potassium binding site 2 out of 2 in 5fkg

Go back to Potassium Binding Sites List in 5fkg
Potassium binding site 2 out of 2 in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant 3BN Is Cg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1232

b:0.2
occ:1.00
O6 A:G16 3.9 0.5 1.0
O6 A:G17 4.3 0.4 1.0
OP2 A:G15 4.4 0.8 1.0
O6 A:G15 4.5 0.1 1.0
N7 A:G15 4.5 0.9 1.0
N7 A:G16 4.6 0.6 1.0
C6 A:G16 4.8 0.4 1.0
C6 A:G15 4.9 0.8 1.0
C5 A:G15 4.9 0.4 1.0

Reference:

L.Huang, J.Wang, D.M.J.Lilley. A Critical Base Pair in K-Turns Determines the Conformational Class Adopted, and Correlates with Biological Function. Nucleic Acids Res. V. 44 5390 2016.
ISSN: ISSN 0305-1048
PubMed: 27016741
DOI: 10.1093/NAR/GKW201
Page generated: Sun Dec 13 23:57:12 2020

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