Magnesium in PDB 7tjh: S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain

The binding sites of Magnesium atom in the S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain (pdb code 7tjh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain, PDB code: 7tjh:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:61.4 occ:1.00 O A:HOH1104 2.1 60.6 1.0 O2G A:ATP1001 2.1 61.5 1.0 O2B A:ATP1001 2.1 61.5 1.0 O A:HOH1125 2.2 62.2 1.0 OG1 A:THR486 2.3 59.2 1.0 O A:HOH1106 2.6 62.4 1.0 PG A:ATP1001 3.3 61.5 1.0 PB A:ATP1001 3.4 61.5 1.0 CB A:THR486 3.4 59.2 1.0 O3B A:ATP1001 3.5 61.5 1.0 NH2 D:ARG267 3.7 58.0 1.0 OE2 A:GLU567 3.8 64.1 1.0 OD2 A:ASP566 3.8 62.6 1.0 O3G A:ATP1001 3.9 61.5 1.0 OD1 A:ASP566 4.0 62.6 1.0 O1A A:ATP1001 4.1 61.5 1.0 O3A A:ATP1001 4.2 61.5 1.0 CG A:ASP566 4.3 62.6 1.0 CG2 A:THR486 4.3 59.2 1.0 N A:THR486 4.3 59.2 1.0 O A:HOH1126 4.4 63.1 1.0 CA A:THR486 4.5 59.2 1.0 O1B A:ATP1001 4.5 61.5 1.0 O1G A:ATP1001 4.6 61.5 1.0 PA A:ATP1001 4.6 61.5 1.0 NH2 A:ARG704 4.6 62.2 1.0 O2A A:ATP1001 4.9 61.5 1.0 CD A:GLU567 4.9 64.1 1.0 CZ D:ARG267 4.9 58.0 1.0

Magnesium binding site 2 out of 4 in the S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1002 b:53.9 occ:1.00 OG1 D:THR109 2.1 53.2 1.0 O D:HOH1103 2.1 54.7 1.0 O1B D:ATP1001 2.1 54.8 1.0 O D:HOH1112 2.1 57.2 1.0 O3G D:ATP1001 2.2 54.8 1.0 O E:HOH1115 2.2 58.4 1.0 CB D:THR109 3.2 53.2 1.0 PB D:ATP1001 3.2 54.8 1.0 PG D:ATP1001 3.4 54.8 1.0 O3B D:ATP1001 3.4 54.8 1.0 O2A D:ATP1001 4.0 54.8 1.0 NZ E:LYS151 4.0 55.2 1.0 O D:HOH1120 4.1 59.0 1.0 OE1 E:GLU154 4.1 60.9 1.0 O D:HOH1144 4.1 57.2 1.0 N D:THR109 4.1 53.2 1.0 O3A D:ATP1001 4.1 54.8 1.0 CG2 D:THR109 4.1 53.2 1.0 CA D:THR109 4.3 53.2 1.0 O2G D:ATP1001 4.3 54.8 1.0 O1G D:ATP1001 4.4 54.8 1.0 O2B D:ATP1001 4.5 54.8 1.0 CE E:LYS151 4.5 55.2 1.0 PA D:ATP1001 4.6 54.8 1.0 OD2 D:ASP217 4.7 60.3 1.0 CD E:GLU154 4.7 60.9 1.0 OE2 E:GLU154 4.8 60.9 1.0 CG D:ASP217 4.9 60.3 1.0

Magnesium binding site 3 out of 4 in the S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg1002 b:55.3 occ:1.00 OG1 E:THR44 2.1 51.6 1.0 O E:HOH1120 2.2 58.1 1.0 O3G E:ATP1001 2.2 56.4 1.0 O2B E:ATP1001 2.3 56.4 1.0 O E:HOH1104 2.3 58.1 1.0 O E:HOH1129 2.7 61.9 1.0 CB E:THR44 3.1 51.6 1.0 PG E:ATP1001 3.3 56.4 1.0 O3B E:ATP1001 3.4 56.4 1.0 PB E:ATP1001 3.4 56.4 1.0 O1G E:ATP1001 3.9 56.4 1.0 OD1 E:ASP133 3.9 54.8 1.0 O E:HOH1108 4.0 60.3 1.0 CG2 E:THR44 4.0 51.6 1.0 OD2 E:ASP133 4.1 54.8 1.0 O1A E:ATP1001 4.1 56.4 1.0 O E:HOH1122 4.2 60.6 1.0 O3A E:ATP1001 4.3 56.4 1.0 CA E:THR44 4.3 51.6 1.0 N E:THR44 4.3 51.6 1.0 CG E:ASP133 4.4 54.8 1.0 O2G E:ATP1001 4.5 56.4 1.0 O1B E:ATP1001 4.5 56.4 1.0 PA E:ATP1001 4.6 56.4 1.0 O2A E:ATP1001 4.8 56.4 1.0

Magnesium binding site 4 out of 4 in the S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of S. Cerevisiae Orc Bound to 84 Bp ARS1 Dna and CDC6 (State 1) with Flexible ORC6 N-Terminal Domain within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg1002 b:81.2 occ:1.00 O I:HOH1102 2.1 81.7 1.0 OG1 I:THR115 2.1 83.5 1.0 O I:HOH1103 2.1 85.7 1.0 O2B I:ATP1001 2.1 81.5 1.0 O3G I:ATP1001 2.2 81.5 1.0 O I:HOH1101 2.4 81.1 1.0 CB I:THR115 3.2 83.5 1.0 PB I:ATP1001 3.3 81.5 1.0 PG I:ATP1001 3.4 81.5 1.0 O3B I:ATP1001 3.5 81.5 1.0 OD2 I:ASP223 3.5 90.4 1.0 NH2 A:ARG616 3.7 69.8 1.0 OD1 I:ASP223 3.8 90.4 1.0 O2A I:ATP1001 3.8 81.5 1.0 CG I:ASP223 4.0 90.4 1.0 O3A I:ATP1001 4.1 81.5 1.0 CG2 I:THR115 4.1 83.5 1.0 OE2 I:GLU224 4.1 89.2 1.0 O1G I:ATP1001 4.2 81.5 1.0 N I:THR115 4.2 83.5 1.0 CA I:THR115 4.3 83.5 1.0 PA I:ATP1001 4.4 81.5 1.0 O2G I:ATP1001 4.5 81.5 1.0 O1B I:ATP1001 4.5 81.5 1.0 NH2 I:ARG332 4.7 77.6 1.0 O1A I:ATP1001 4.8 81.5 1.0 CZ A:ARG616 4.9 69.8 1.0 CE I:LYS114 4.9 83.0 1.0

J.M.Schmidt, R.Yang, A.Kumar, O.Hunker, J.Seebacher, F.Bleichert. A Mechanism of Origin Licensing Control Through Autoinhibition of S. Cerevisiae Orc·Dna·CDC6. Nat Commun V. 13 1059 2022.
ISSN: ESSN 2041-1723
PubMed: 35217664
DOI: 10.1038/S41467-022-28695-W