Magnesium in PDB 2mtk: uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement

The binding sites of Magnesium atom in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement (pdb code 2mtk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement, PDB code: 2mtk:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg101 b:0.0 occ:1.00 O A:HOH203 1.8 0.0 1.0 O A:HOH202 1.8 0.0 1.0 O A:HOH205 1.8 0.0 1.0 O A:HOH204 1.8 0.0 1.0 O A:HOH201 1.8 0.0 1.0 OP1 A:A30 2.3 0.0 1.0 P A:A30 3.4 0.0 1.0 OP2 A:A30 3.6 0.0 1.0 C6 A:G28 4.0 0.0 1.0 N1 A:G28 4.1 0.0 1.0 O6 A:G28 4.3 0.0 1.0 O3' A:A29 4.3 0.0 1.0 C5 A:G28 4.3 0.0 1.0 H1 A:G28 4.4 0.0 1.0 C2 A:G28 4.5 0.0 1.0 H5'' A:A29 4.6 0.0 1.0 O5' A:A30 4.7 0.0 1.0 C4 A:G28 4.7 0.0 1.0 N3 A:G28 4.8 0.0 1.0 N7 A:G28 4.9 0.0 1.0 H2' A:G28 5.0 0.0 1.0

Magnesium binding site 2 out of 6 in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg102 b:0.0 occ:1.00 O A:HOH208 1.8 0.0 1.0 O A:HOH211 1.8 0.0 1.0 O A:HOH207 1.8 0.0 1.0 O A:HOH210 1.8 0.0 1.0 O A:HOH209 1.8 0.0 1.0 O A:HOH206 1.8 0.0 1.0 H42 A:C33 3.5 0.0 1.0 O6 A:G32 3.7 0.0 1.0 O6 A:G26 3.8 0.0 1.0 H41 A:C33 4.0 0.0 1.0 N4 A:C33 4.0 0.0 1.0 N7 A:G32 4.1 0.0 1.0 C6 A:G32 4.3 0.0 1.0 C5 A:G32 4.5 0.0 1.0 H41 A:C27 4.8 0.0 1.0

Magnesium binding site 3 out of 6 in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg103 b:0.0 occ:1.00 O A:HOH217 1.8 0.0 1.0 O A:HOH214 1.8 0.0 1.0 O A:HOH216 1.8 0.0 1.0 O A:HOH213 1.8 0.0 1.0 O A:HOH215 1.8 0.0 1.0 O A:HOH212 1.8 0.0 1.0 O6 A:G16 4.2 0.0 1.0 N7 A:G16 4.5 0.0 1.0 O2 A:U15 4.9 0.0 1.0 O6 A:G17 4.9 0.0 1.0 C6 A:G16 4.9 0.0 1.0

Magnesium binding site 4 out of 6 in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg104 b:0.0 occ:1.00 O A:HOH223 1.8 0.0 1.0 O A:HOH220 1.8 0.0 1.0 O A:HOH219 1.8 0.0 1.0 O A:HOH222 1.8 0.0 1.0 O A:HOH218 1.8 0.0 1.0 O A:HOH221 1.8 0.0 1.0 N7 A:G21 3.5 0.0 1.0 O6 A:G21 3.8 0.0 1.0 N7 A:G20 3.8 0.0 1.0 C5 A:G20 4.1 0.0 1.0 C5 A:G21 4.3 0.0 1.0 C8 A:G20 4.3 0.0 1.0 C6 A:G21 4.4 0.0 1.0 O6 A:G20 4.4 0.0 1.0 C6 A:G20 4.4 0.0 1.0 C8 A:G21 4.6 0.0 1.0 H8 A:G20 4.7 0.0 1.0 H8 A:G21 4.8 0.0 1.0 C4 A:G20 4.9 0.0 1.0 H2' A:G20 4.9 0.0 1.0 N9 A:G20 5.0 0.0 1.0

Magnesium binding site 5 out of 6 in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg105 b:0.0 occ:1.00 O A:HOH229 1.8 0.0 1.0 O A:HOH226 1.8 0.0 1.0 O A:HOH225 1.8 0.0 1.0 O A:HOH227 1.8 0.0 1.0 O A:HOH228 1.8 0.0 1.0 O A:HOH224 1.8 0.0 1.0 OP2 A:A39 3.1 0.0 1.0 H3' A:U37 3.5 0.0 1.0 O5' A:G38 4.2 0.0 1.0 H2' A:U37 4.2 0.0 1.0 H5'' A:G38 4.2 0.0 1.0 C6 A:U37 4.4 0.0 1.0 P A:A39 4.4 0.0 1.0 H6 A:U37 4.4 0.0 1.0 C5 A:U37 4.4 0.0 1.0 C3' A:U37 4.5 0.0 1.0 H5 A:U37 4.5 0.0 1.0 OP2 A:G38 4.6 0.0 1.0 OP1 A:A39 4.8 0.0 1.0 H3' A:G38 4.8 0.0 1.0 C5' A:G38 4.8 0.0 1.0 N1 A:U37 4.8 0.0 1.0 C2' A:U37 4.9 0.0 1.0 H5'' A:A39 4.9 0.0 1.0 H5'' A:U37 4.9 0.0 1.0 H5' A:A39 4.9 0.0 1.0 C4 A:U37 5.0 0.0 1.0

Magnesium binding site 6 out of 6 in the uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of uc(Nmr) Structure of the III-IV-V Three-Way Junction From the Vs Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg106 b:0.0 occ:1.00 O A:HOH232 1.8 0.0 1.0 O A:HOH235 1.8 0.0 1.0 O A:HOH231 1.8 0.0 1.0 O A:HOH234 1.8 0.0 1.0 O A:HOH233 1.8 0.0 1.0 O A:HOH230 1.8 0.0 1.0 O6 A:G42 3.7 0.0 1.0 N7 A:G42 3.7 0.0 1.0 H2' A:C23 4.0 0.0 1.0 H41 A:C5 4.2 0.0 1.0 C6 A:G42 4.2 0.0 1.0 C5 A:G42 4.2 0.0 1.0 OP1 A:G24 4.3 0.0 1.0 O6 A:G43 4.5 0.0 1.0 C8 A:G42 4.7 0.0 1.0 O2 A:C23 4.8 0.0 1.0 H8 A:G42 5.0 0.0 1.0

E.Bonneau, P.Legault. Nuclear Magnetic Resonance Structure of the III-IV-V Three-Way Junction From the Varkud Satellite Ribozyme and Identification of Magnesium-Binding Sites Using Paramagnetic Relaxation Enhancement. Biochemistry V. 53 6264 2014.
ISSN: ISSN 0006-2960
PubMed: 25238589
DOI: 10.1021/BI500826N