Manganese in PDB 1yn2: Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions

The binding sites of Manganese atom in the Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions (pdb code 1yn2). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions, PDB code: 1yn2:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn707 b:1.0 occ:1.00 O A:HOH713 2.0 2.4 1.0 O A:HOH712 2.0 2.3 1.0 O A:HOH715 2.0 2.0 1.0 O A:HOH711 2.0 1.9 1.0 O A:HOH714 2.0 2.0 1.0 O A:HOH716 2.0 2.3 1.0 OP2 A:U696 3.8 0.8 1.0 H5'' A:G697 4.6 1.0 1.0 P A:U696 4.8 0.6 1.0

Manganese binding site 2 out of 4 in the Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn708 b:1.7 occ:1.00 O A:HOH719 2.0 2.2 1.0 O A:HOH718 2.0 2.8 1.0 O A:HOH722 2.0 2.1 1.0 O A:HOH717 2.0 2.4 1.0 O A:HOH721 2.0 2.6 1.0 O A:HOH720 2.0 2.8 1.0 H62 A:A698 3.5 0.6 1.0 N6 A:A698 3.8 0.6 1.0 H61 A:A698 3.9 0.7 1.0 N7 A:G697 4.1 0.7 1.0 H8 A:G697 4.2 0.6 1.0 OP1 A:G697 4.6 1.2 1.0 C8 A:G697 4.6 0.5 1.0 C6 A:A698 4.6 0.5 1.0 HO2' A:U696 4.9 0.9 1.0

Manganese binding site 3 out of 4 in the Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn709 b:1.8 occ:1.00 O A:HOH725 2.0 2.4 1.0 O A:HOH724 2.0 2.2 1.0 O A:HOH723 2.0 2.8 1.0 O A:HOH727 2.0 2.2 1.0 O A:HOH728 2.0 3.0 1.0 O A:HOH726 2.0 2.9 1.0 O4 A:U696 4.7 0.8 1.0 OP2 A:C699 4.7 0.7 1.0

Manganese binding site 4 out of 4 in the Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Solution Structure of the Neurospora Vs Ribozyme Stem-Loop V in the Presence of MGCL2 with Modeling of Bound Manganese Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn710 b:1.2 occ:1.00 O A:HOH731 2.0 2.0 1.0 O A:HOH730 2.0 2.7 1.0 O A:HOH733 2.0 2.1 1.0 O A:HOH734 2.0 2.4 1.0 O A:HOH729 2.0 1.9 1.0 O A:HOH732 2.0 2.5 1.0 OP2 A:A701 3.8 1.4 1.0 H42 A:C702 3.8 0.9 1.0 N4 A:C702 4.3 0.9 1.0 H41 A:C702 4.4 1.0 1.0 H5'' A:U700 4.6 1.3 1.0 H62 A:A701 4.7 0.6 1.0

D.O.Campbell, P.Bouchard, G.Desjardins, P.Legault. uc(Nmr) Structure of Varkud Satellite Ribozyme Stem-Loop V in the Presence of Magnesium Ions and Localization of Metal-Binding Sites Biochemistry V. 45 10591 2006.
ISSN: ISSN 0006-2960
PubMed: 16939211
DOI: 10.1021/BI0607150