Magnesium in PDB 4fnj: Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix

The structure of Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix, PDB code: 4fnj was solved by L.A.Coonrod, J.R.Lohman, J.A.Berglund, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.75 / 1.95
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	70.336, 70.336, 68.236, 90.00, 90.00, 120.00
R / Rfree (%)	20.8 / 26.6

The binding sites of Magnesium atom in the Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix (pdb code 4fnj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix, PDB code: 4fnj:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg101 b:77.6 occ:1.00 O A:HOH231 2.2 51.5 1.0 O A:HOH228 2.2 62.9 1.0 O A:HOH230 2.3 59.0 1.0 O A:HOH227 2.7 54.1 1.0 O6 A:G17 4.1 54.8 1.0 O A:HOH238 4.2 64.7 1.0 N7 A:G17 4.7 57.0 1.0 O4 A:U16 4.8 46.3 1.0 C5 A:U16 5.0 43.9 1.0 C6 A:G17 5.0 52.4 1.0

Magnesium binding site 2 out of 5 in the Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg102 b:71.7 occ:1.00 O A:HOH217 1.9 72.1 1.0 O A:HOH214 2.3 54.6 1.0 O A:HOH239 2.4 56.0 1.0 O A:HOH226 2.5 50.8 1.0 O A:HOH213 4.1 57.6 1.0 O4 A:U22 4.4 46.2 1.0 N7 A:G21 4.5 45.6 1.0 OP2 A:A20 4.6 61.0 1.0 O6 A:G21 4.6 44.7 1.0

Magnesium binding site 3 out of 5 in the Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg103 b:74.8 occ:1.00 O A:HOH207 3.0 43.4 1.0 O6 A:G32 3.1 62.6 1.0 O A:HOH221 3.3 56.2 1.0 O6 A:G3 3.8 64.8 1.0 O4 A:U31 3.9 52.9 1.0 N4 A:C33 4.1 58.8 1.0 C6 A:G32 4.2 56.7 1.0 N4 A:C4 4.3 57.1 1.0 N7 A:G32 4.6 60.4 1.0 C4 A:U31 4.7 52.0 1.0 C5 A:G32 4.8 55.4 1.0 C6 A:G3 4.9 48.9 1.0

Magnesium binding site 4 out of 5 in the Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg104 b:73.1 occ:1.00 O2' A:A10 2.3 82.8 1.0 N7 A:G12 2.7 44.7 1.0 O6 A:G12 2.7 40.8 1.0 OP2 A:A11 3.2 73.6 1.0 C5 A:G12 3.3 38.6 1.0 C6 A:G12 3.3 46.4 1.0 O3' A:A10 3.3 72.8 1.0 O6 A:G13 3.4 45.0 1.0 C2' A:A10 3.5 59.1 1.0 C8 A:G12 3.9 44.6 1.0 C3' A:A10 3.9 58.8 1.0 P A:A11 3.9 63.8 1.0 N7 A:G13 4.0 40.0 1.0 C6 A:G13 4.1 42.1 1.0 C5' A:A11 4.2 51.4 1.0 C5 A:G13 4.4 37.0 1.0 N7 A:A11 4.4 50.6 1.0 O4 A:U25 4.5 47.6 1.0 C4 A:G12 4.6 41.4 1.0 C1' A:A10 4.6 50.6 1.0 C8 A:A11 4.6 46.3 1.0 O5' A:A11 4.6 57.5 1.0 N1 A:G12 4.6 43.4 1.0 N3 A:U25 4.7 41.3 1.0 OP2 A:G12 4.8 60.4 1.0 N9 A:G12 4.9 45.0 1.0 N4 A:C24 4.9 43.3 1.0

Magnesium binding site 5 out of 5 in the Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Structure Determination of A Cug Rna Helix within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg105 b:80.0 occ:1.00 OP1 A:G28 2.7 56.0 1.0 O A:HOH232 3.3 60.5 1.0 OP2 A:C29 3.7 50.2 1.0 P A:G28 4.0 50.5 1.0 OP2 A:G28 4.4 42.2 1.0 P A:C29 4.7 61.1 1.0 OP1 A:C29 4.9 59.5 1.0 O3' A:U27 4.9 50.6 1.0

L.A.Coonrod, J.R.Lohman, J.A.Berglund. Utilizing the Gaaa Tetraloop/Receptor to Facilitate Crystal Packing and Determination of the Structure of A Cug Rna Helix. Biochemistry V. 51 8330 2012.
ISSN: ISSN 0006-2960
PubMed: 23025897
DOI: 10.1021/BI300829W