Magnesium in PDB 7jk2: Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1)

The binding sites of Magnesium atom in the Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1) (pdb code 7jk2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1), PDB code: 7jk2:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg902 b:90.2 occ:1.00 OG1 D:THR63 2.1 86.9 1.0 O2B D:ATP901 2.1 93.8 1.0 O3G D:ATP901 2.4 93.8 1.0 CB D:THR63 3.2 86.9 1.0 PB D:ATP901 3.4 93.8 1.0 NH2 E:ARG144 3.6 87.5 1.0 PG D:ATP901 3.6 93.8 1.0 O3B D:ATP901 3.7 93.8 1.0 CG2 D:THR63 3.8 86.9 1.0 O2A D:ATP901 3.8 93.8 1.0 OE1 E:GLU147 4.1 91.0 1.0 OE2 E:GLU147 4.3 91.0 1.0 O1G D:ATP901 4.3 93.8 1.0 OE1 D:GLU147 4.4 89.4 1.0 O1B D:ATP901 4.5 93.8 1.0 CA D:THR63 4.5 86.9 1.0 O3A D:ATP901 4.5 93.8 1.0 N D:THR63 4.5 86.9 1.0 CD E:GLU147 4.6 91.0 1.0 PA D:ATP901 4.6 93.8 1.0 CZ E:ARG144 4.7 87.5 1.0 O2G D:ATP901 4.7 93.8 1.0 OE2 D:GLU147 4.8 89.4 1.0 CD D:GLU147 4.8 89.4 1.0

Magnesium binding site 2 out of 4 in the Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg902 b:85.8 occ:1.00 O2B E:ATP901 2.1 0.6 1.0 OG1 E:THR48 2.1 91.8 1.0 O2G E:ATP901 2.7 0.6 1.0 O1G E:ATP901 2.9 0.6 1.0 OD2 E:ASP126 3.3 92.4 1.0 PG E:ATP901 3.3 0.6 1.0 CB E:THR48 3.4 91.8 1.0 PB E:ATP901 3.5 0.6 1.0 OD1 E:ASP126 3.8 92.4 1.0 O3B E:ATP901 3.8 0.6 1.0 CG E:ASP126 3.9 92.4 1.0 CG2 E:THR48 4.1 91.8 1.0 O1B E:ATP901 4.4 0.6 1.0 NZ C:LYS260 4.5 0.9 1.0 CA E:THR48 4.5 91.8 1.0 O1A E:ATP901 4.5 0.6 1.0 O3A E:ATP901 4.5 0.6 1.0 N E:THR48 4.5 91.8 1.0 O3G E:ATP901 4.7 0.6 1.0 PA E:ATP901 4.9 0.6 1.0

Magnesium binding site 3 out of 4 in the Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:89.3 occ:1.00 OG1 A:THR605 2.1 87.7 1.0 O3G A:ATP1001 2.1 94.3 1.0 O2B A:ATP1001 2.3 94.3 1.0 CB A:THR605 3.2 87.7 1.0 PG A:ATP1001 3.4 94.3 1.0 O1A A:ATP1001 3.4 94.3 1.0 PB A:ATP1001 3.6 94.3 1.0 NH2 D:ARG197 3.7 91.9 1.0 O3B A:ATP1001 3.7 94.3 1.0 CG2 A:THR605 3.8 87.7 1.0 O1G A:ATP1001 4.1 94.3 1.0 OD2 A:ASP684 4.3 98.4 1.0 O3A A:ATP1001 4.4 94.3 1.0 CA A:THR605 4.4 87.7 1.0 PA A:ATP1001 4.5 94.3 1.0 N A:THR605 4.5 87.7 1.0 OE2 A:GLU685 4.6 96.4 1.0 O2G A:ATP1001 4.6 94.3 1.0 CG A:ASP684 4.6 98.4 1.0 OD1 A:ASP684 4.7 98.4 1.0 O1B A:ATP1001 4.8 94.3 1.0 NH2 A:ARG784 4.9 92.6 1.0 CZ D:ARG197 4.9 91.9 1.0

Magnesium binding site 4 out of 4 in the Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Drosophila Orc Bound to Poly(Da/Dt) Dna and CDC6 (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg902 b:0.1 occ:1.00 OG1 G:THR304 2.1 0.8 1.0 O2B G:ATP901 2.7 0.3 1.0 O3G G:ATP901 2.7 0.3 1.0 OD2 G:ASP376 3.1 0.5 1.0 CB G:THR304 3.1 0.8 1.0 NH2 A:ARG734 3.4 0.3 1.0 CG2 G:THR304 3.5 0.8 1.0 OE2 G:GLU377 3.7 0.0 1.0 O1A G:ATP901 3.7 0.3 1.0 OD1 G:ASP376 3.8 0.5 1.0 CG G:ASP376 3.8 0.5 1.0 PB G:ATP901 4.0 0.3 1.0 PG G:ATP901 4.0 0.3 1.0 O3B G:ATP901 4.2 0.3 1.0 OH A:TYR698 4.4 97.2 1.0 CA G:THR304 4.5 0.8 1.0 PA G:ATP901 4.6 0.3 1.0 CD G:GLU377 4.6 0.0 1.0 CZ A:ARG734 4.6 0.3 1.0 O3A G:ATP901 4.8 0.3 1.0 N G:THR304 4.8 0.8 1.0 O1G G:ATP901 4.8 0.3 1.0 CG G:GLU377 5.0 0.0 1.0 O2A G:ATP901 5.0 0.3 1.0

J.M.Schmidt, F.Bleichert. Structural Mechanism For Replication Origin Binding and Remodeling By A Metazoan Origin Recognition Complex and Its Co-Loader CDC6. Nat Commun V. 11 4263 2020.
ISSN: ESSN 2041-1723
PubMed: 32848132
DOI: 10.1038/S41467-020-18067-7