Magnesium in PDB 6gvt: Hybrid Structure of the PRN1 Helix Bundle Domain in Complex with Dna and 2 Atp Molecules

The binding sites of Magnesium atom in the Hybrid Structure of the PRN1 Helix Bundle Domain in Complex with Dna and 2 Atp Molecules (pdb code 6gvt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Hybrid Structure of the PRN1 Helix Bundle Domain in Complex with Dna and 2 Atp Molecules, PDB code: 6gvt:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Hybrid Structure of the PRN1 Helix Bundle Domain in Complex with Dna and 2 Atp Molecules


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Hybrid Structure of the PRN1 Helix Bundle Domain in Complex with Dna and 2 Atp Molecules within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg403 b:0.0 occ:1.00 O2G B:ATP401 1.8 0.0 1.0 OD2 B:ASP308 1.8 0.0 1.0 O1A B:ATP401 1.8 0.0 1.0 O2B B:ATP401 1.9 0.0 1.0 CG B:ASP308 2.8 0.0 1.0 PB B:ATP401 2.9 0.0 1.0 HA B:ASP308 2.9 0.0 1.0 PA B:ATP401 3.0 0.0 1.0 PG B:ATP401 3.1 0.0 1.0 O3A B:ATP401 3.1 0.0 1.0 O3B B:ATP401 3.2 0.0 1.0 HB3 B:ASP308 3.4 0.0 1.0 CB B:ASP308 3.5 0.0 1.0 H5'1 B:ATP401 3.5 0.0 1.0 CA B:ASP308 3.7 0.0 1.0 OD1 B:ASP308 3.8 0.0 1.0 O3G B:ATP401 3.9 0.0 1.0 H B:ARG309 4.0 0.0 1.0 O5' B:ATP401 4.0 0.0 1.0 O1G B:ATP401 4.1 0.0 1.0 O2A B:ATP401 4.1 0.0 1.0 C5' B:ATP401 4.2 0.0 1.0 O1B B:ATP401 4.2 0.0 1.0 N1 B:ATP401 4.3 0.0 1.0 C6 B:ATP401 4.3 0.0 1.0 H5'2 B:ATP401 4.3 0.0 1.0 C2 B:ATP401 4.4 0.0 1.0 N B:ASP308 4.5 0.0 1.0 C5 B:ATP401 4.5 0.0 1.0 HB2 B:ASP308 4.5 0.0 1.0 C4 B:ATP401 4.6 0.0 1.0 N3 B:ATP401 4.7 0.0 1.0 N B:ARG309 4.8 0.0 1.0 C B:ASP308 4.8 0.0 1.0 N6 B:ATP401 4.8 0.0 1.0 H B:ASP308 4.8 0.0 1.0 H2 B:ATP401 4.8 0.0 1.0 HG3 B:ARG309 4.9 0.0 1.0

Magnesium binding site 2 out of 2 in the Hybrid Structure of the PRN1 Helix Bundle Domain in Complex with Dna and 2 Atp Molecules


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Hybrid Structure of the PRN1 Helix Bundle Domain in Complex with Dna and 2 Atp Molecules within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg404 b:0.0 occ:1.00 O1G B:ATP402 1.8 0.0 1.0 O1A B:ATP402 1.8 0.0 1.0 OE2 B:GLU343 1.9 0.0 1.0 O1B B:ATP402 1.9 0.0 1.0 H B:GLU345 2.7 0.0 1.0 PG B:ATP402 2.9 0.0 1.0 PB B:ATP402 2.9 0.0 1.0 CD B:GLU343 3.0 0.0 1.0 PA B:ATP402 3.0 0.0 1.0 O3B B:ATP402 3.2 0.0 1.0 O3A B:ATP402 3.2 0.0 1.0 O2G B:ATP402 3.3 0.0 1.0 HB2 B:GLU345 3.3 0.0 1.0 HG2 B:GLU343 3.3 0.0 1.0 HB3 B:GLU345 3.5 0.0 1.0 HB3 B:GLU343 3.6 0.0 1.0 CG B:GLU343 3.6 0.0 1.0 N B:GLU345 3.7 0.0 1.0 H B:ASN344 3.9 0.0 1.0 CB B:GLU345 3.9 0.0 1.0 OE1 B:GLU343 4.0 0.0 1.0 O5' B:ATP402 4.0 0.0 1.0 HA B:ASN344 4.0 0.0 1.0 N B:ASN344 4.1 0.0 1.0 CB B:GLU343 4.2 0.0 1.0 O2A B:ATP402 4.2 0.0 1.0 O3G B:ATP402 4.2 0.0 1.0 O2B B:ATP402 4.3 0.0 1.0 CA B:GLU345 4.5 0.0 1.0 HZ3 B:LYS346 4.5 0.0 1.0 CA B:ASN344 4.5 0.0 1.0 HZ2 B:LYS346 4.5 0.0 1.0 C B:ASN344 4.6 0.0 1.0 HG3 B:GLU343 4.6 0.0 1.0 C B:GLU343 4.7 0.0 1.0 HG3 B:LYS340 5.0 0.0 1.0 H B:LYS346 5.0 0.0 1.0

J.Boudet, J.C.Devillier, T.Wiegand, L.Salmon, B.H.Meier, G.Lipps, F.H.Allain. A Small Helical Bundle Prepares Primer Synthesis By Binding Two Nucleotides That Enhance Sequence-Specific Recognition of the Dna Template. Cell V. 176 154 2019.
ISSN: ISSN 1097-4172
PubMed: 30595448
DOI: 10.1016/J.CELL.2018.11.031