Magnesium in PDB 7bv2: The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp)

The structure of The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp) also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp) (pdb code 7bv2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp), PDB code: 7bv2:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1004 b:41.2 occ:1.00 O4 A:POP1003 2.5 53.9 1.0 O1 A:POP1003 2.8 53.9 1.0 OD2 A:ASP760 3.2 28.9 1.0 O A:TYR619 3.3 25.9 1.0 O2 A:POP1003 3.4 53.9 1.0 P1 A:POP1003 3.5 53.9 1.0 O5 P:F86101 3.6 24.2 1.0 O A:HOH1101 3.6 30.0 1.0 P2 A:POP1003 3.7 53.9 1.0 O A:HOH1104 4.0 30.0 1.0 O A:POP1003 4.0 53.9 1.0 O5 A:POP1003 4.2 53.9 1.0 CG A:ASP760 4.3 28.9 1.0 O A:HOH1105 4.4 30.0 1.0 C6 P:F86101 4.5 24.2 1.0 C A:TYR619 4.5 25.9 1.0 O4 P:F86101 4.5 24.2 1.0 CB A:CYS622 4.6 30.3 1.0 P1 P:F86101 4.7 24.2 1.0 OD1 A:ASP760 4.8 28.9 1.0 N A:TYR619 4.8 25.9 1.0 O3 A:POP1003 4.9 53.9 1.0 O6 A:POP1003 4.9 53.9 1.0

Magnesium binding site 2 out of 3 in the The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1005 b:32.4 occ:1.00 OP1 P:U20 2.3 13.8 1.0 OD2 A:ASP761 3.1 27.4 1.0 O A:HOH1103 3.3 30.0 1.0 OD1 A:ASP761 3.5 27.4 1.0 P P:U20 3.5 13.8 1.0 C5' P:U20 3.6 13.8 1.0 CG A:ASP761 3.7 27.4 1.0 O5' P:U20 3.7 13.8 1.0 O A:HOH1105 3.7 30.0 1.0 O5 P:F86101 3.9 24.2 1.0 OG A:SER814 4.1 28.7 1.0 N A:SER814 4.2 28.7 1.0 CA A:CYS813 4.3 27.7 1.0 C A:CYS813 4.5 27.7 1.0 N A:CYS813 4.6 27.7 1.0 O3' P:A19 4.6 10.3 1.0 OP2 P:U20 4.6 13.8 1.0 P1 P:F86101 4.6 24.2 1.0 O6 P:F86101 4.7 24.2 1.0 O3' P:U20 4.8 13.8 1.0 C4' P:U20 4.8 13.8 1.0 CB A:SER814 4.9 28.7 1.0 CA A:SER814 5.0 28.7 1.0

Magnesium binding site 3 out of 3 in the The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1006 b:30.0 occ:1.00 O A:GLU811 3.1 28.1 1.0 NE1 A:TRP800 3.2 25.3 1.0 O A:HOH1102 3.2 30.0 1.0 CD1 A:TRP800 4.0 25.3 1.0 C A:GLU811 4.0 28.1 1.0 OD1 A:ASP618 4.1 30.7 1.0 O A:HOH1103 4.1 30.0 1.0 CE2 A:TRP800 4.3 25.3 1.0 CB A:GLU811 4.4 28.1 1.0 O A:TRP617 4.5 26.4 1.0 CA A:GLY616 4.7 25.4 1.0 CZ2 A:TRP800 4.7 25.3 1.0 CA A:GLU811 4.7 28.1 1.0 C A:GLY616 4.7 25.4 1.0 N A:TRP617 4.8 26.4 1.0 CG A:GLU811 4.8 28.1 1.0 O A:HOH1105 4.8 30.0 1.0 O A:ALA762 4.8 23.4 1.0 N A:PHE812 4.9 24.8 1.0

W.Yin, C.Mao, X.Luan, D.Shen, Q.Shen, H.Su, X.Wang, F.Zhou, W.Zhao, M.Gao, S.Chang, Y.C.Xie, G.Tian, H.W.Jiang, S.C.Tao, J.Shen, Y.Jiang, H.Jiang, Y.Xu, S.Zhang, Y.Zhang, H.E.Xu. The NSP12-NSP7-NSP8 Complex Bound to the Template-Primer Rna and Triphosphate Form of Remdesivir(Rtp) To Be Published.