Magnesium in PDB 7jps: Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core

The structure of Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Magnesium atom in the Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core (pdb code 7jps). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core, PDB code: 7jps:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg902 b:18.8 occ:1.00 O1B A:ATP901 2.1 27.1 1.0 O3G A:ATP901 2.1 27.1 1.0 OG1 A:THR541 2.8 20.1 1.0 O3B A:ATP901 2.9 27.1 1.0 PB A:ATP901 3.0 27.1 1.0 OD2 A:ASP620 3.1 23.9 1.0 PG A:ATP901 3.1 27.1 1.0 O3A A:ATP901 3.7 27.1 1.0 CB A:THR541 4.0 20.1 1.0 CG A:ASP620 4.0 23.9 1.0 NH2 D:ARG209 4.1 20.2 1.0 O2G A:ATP901 4.1 27.1 1.0 O1G A:ATP901 4.1 27.1 1.0 OD1 A:ASP620 4.2 23.9 1.0 O2B A:ATP901 4.4 27.1 1.0 OE2 A:GLU621 4.6 21.2 1.0 CG2 A:THR541 4.7 20.1 1.0 OH D:TYR174 4.8 20.7 1.0 NH1 D:ARG209 5.0 20.2 1.0 N A:THR541 5.0 20.1 1.0

Magnesium binding site 2 out of 3 in the Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg902 b:10.6 occ:1.00 OG1 D:THR74 2.5 12.9 1.0 CG2 D:THR74 2.6 12.9 1.0 O3G D:ATP901 2.8 17.2 1.0 O3B D:ATP901 2.9 17.2 1.0 CB D:THR74 3.1 12.9 1.0 O3A D:ATP901 3.2 17.2 1.0 PG D:ATP901 3.2 17.2 1.0 O1G D:ATP901 3.2 17.2 1.0 PB D:ATP901 3.7 17.2 1.0 N D:THR74 3.9 12.9 1.0 O1A D:ATP901 4.0 17.2 1.0 CA D:THR74 4.1 12.9 1.0 O2B D:ATP901 4.2 17.2 1.0 PA D:ATP901 4.3 17.2 1.0 O2G D:ATP901 4.7 17.2 1.0 O1B D:ATP901 4.9 17.2 1.0 C D:LYS73 5.0 12.5 1.0

Magnesium binding site 3 out of 3 in the Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Orc-Dna: Human Origin Recognition Complex (Orc) with Dna Bound in the Core within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg502 b:10.6 occ:1.00 O1B E:ATP501 2.1 26.0 1.0 O3G E:ATP501 2.2 26.0 1.0 OG1 E:THR44 2.4 13.8 1.0 O3B E:ATP501 3.1 26.0 1.0 OD1 E:ASP125 3.2 14.0 1.0 PB E:ATP501 3.2 26.0 1.0 PG E:ATP501 3.3 26.0 1.0 OD2 E:ASP125 3.4 14.0 1.0 CG E:ASP125 3.7 14.0 1.0 CB E:THR44 3.8 13.8 1.0 O2G E:ATP501 4.1 26.0 1.0 O3A E:ATP501 4.2 26.0 1.0 O2B E:ATP501 4.3 26.0 1.0 O1G E:ATP501 4.4 26.0 1.0 N E:THR44 4.4 13.8 1.0 O1A E:ATP501 4.5 26.0 1.0 CG2 E:THR44 4.6 13.8 1.0 CA E:THR44 4.6 13.8 1.0 PA E:ATP501 4.7 26.0 1.0 O2A E:ATP501 5.0 26.0 1.0

M.J.Jaremko, K.F.On, D.R.Thomas, B.Stillman, L.Joshua-Tor. The Dynamic Nature of the Human Origin Recognition Complex Revealed Through Five Cryoem Structures. Elife V. 9 2020.
ISSN: ESSN 2050-084X
PubMed: 32808929
DOI: 10.7554/ELIFE.58622