Magnesium in PDB 8kie: Structure of Ychf with 50S Ribosomal Subunit (Local Map)

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30;

Binding sites:

The binding sites of Magnesium atom in the Structure of Ychf with 50S Ribosomal Subunit (Local Map) (pdb code 8kie). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 30 binding sites of Magnesium where determined in the Structure of Ychf with 50S Ribosomal Subunit (Local Map), PDB code: 8kie:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3101 b:62.0 occ:1.00 N7 a:A882 2.1 70.2 1.0 N7 a:G733 2.2 63.5 1.0 C8 a:A882 2.9 70.2 1.0 C8 a:G733 3.2 63.5 1.0 C5 a:G733 3.3 63.5 1.0 C5 a:A882 3.3 70.2 1.0 O6 a:G733 3.6 63.5 1.0 OP2 a:G733 3.7 63.5 1.0 OP2 a:A882 3.8 70.2 1.0 C6 a:G733 3.8 63.5 1.0 N6 a:A882 3.9 70.2 1.0 C6 a:A882 4.0 70.2 1.0 N9 a:A882 4.1 70.2 1.0 OP2 a:C732 4.2 62.7 1.0 C4 a:A882 4.3 70.2 1.0 N9 a:G733 4.4 63.5 1.0 OP2 a:G881 4.4 73.4 1.0 C4 a:G733 4.4 63.5 1.0 C5 a:C732 4.5 62.7 1.0 O5' a:A882 4.6 70.2 1.0 C6 a:C732 4.7 62.7 1.0 N7 a:G881 4.8 73.4 1.0 P a:A882 4.8 70.2 1.0 O5' a:G733 4.8 63.5 1.0 P a:G733 4.9 63.5 1.0 O5' a:C732 4.9 62.7 1.0 C8 a:G881 5.0 73.4 1.0

Magnesium binding site 2 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3102 b:60.7 occ:1.00 N7 a:G878 3.9 64.5 1.0 N1 a:A860 3.9 80.7 1.0 O6 a:G878 4.0 64.5 1.0 N4 a:C879 4.2 66.9 1.0 N6 a:A877 4.2 63.0 1.0 C2 a:A860 4.2 80.7 1.0 N7 a:A877 4.3 63.0 1.0 C5 a:G878 4.7 64.5 1.0 C6 a:G878 4.7 64.5 1.0 C4 a:C879 4.7 66.9 1.0 C5 a:A877 4.9 63.0 1.0 C6 a:A877 5.0 63.0 1.0 C8 a:G878 5.0 64.5 1.0

Magnesium binding site 3 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3103 b:58.4 occ:1.00 O6 a:1MG866 3.8 75.9 1.0 OP2 a:U865 4.1 67.3 1.0 N7 a:1MG866 4.2 75.9 1.0 OP1 a:C2731 4.2 82.8 1.0 C6 a:1MG866 4.7 75.9 1.0 C5 a:1MG866 4.8 75.9 1.0

Magnesium binding site 4 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3104 b:49.8 occ:1.00 OP2 a:A1785 2.0 52.5 1.0 P a:A1785 3.4 52.5 1.0 N7 a:G2113 3.7 50.9 1.0 O6 a:G1788 3.9 52.0 1.0 N6 a:A1786 4.0 52.8 1.0 OP1 a:G2113 4.0 50.9 1.0 OP2 a:G2113 4.1 50.9 1.0 O6 a:G1787 4.1 52.9 1.0 OP1 a:A1785 4.2 52.5 1.0 C2' a:G1784 4.2 50.5 1.0 N7 a:A1786 4.3 52.8 1.0 O5' a:A1785 4.3 52.5 1.0 O6 a:G2113 4.3 50.9 1.0 C3' a:G1784 4.4 50.5 1.0 O3' a:G1784 4.4 50.5 1.0 N1 a:G1788 4.5 52.0 1.0 C5 a:G2113 4.5 50.9 1.0 N7 a:G1787 4.5 52.9 1.0 C6 a:G1788 4.5 52.0 1.0 C8 a:G2113 4.6 50.9 1.0 P a:G2113 4.6 50.9 1.0 C6 a:G2113 4.7 50.9 1.0 N7 a:A1785 4.8 52.5 1.0 C6 a:A1786 4.9 52.8 1.0 C5 a:A1786 4.9 52.8 1.0 C6 a:G1787 5.0 52.9 1.0

Magnesium binding site 5 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3105 b:55.8 occ:1.00 OP1 a:C2107 3.5 58.4 1.0 OP2 a:A2108 4.1 59.6 1.0 O6 a:G2075 4.2 65.3 1.0 OP1 a:C2672 4.2 68.0 1.0 OP1 a:A1790 4.4 51.3 1.0 N1 a:G2075 4.4 65.3 1.0 C6 a:G2075 4.5 65.3 1.0 P a:C2107 4.6 58.4 1.0 O3' a:G2671 4.7 63.8 1.0 OP1 a:A2108 4.8 59.6 1.0 P a:A2108 4.9 59.6 1.0 O5' a:C2107 4.9 58.4 1.0

Magnesium binding site 6 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3106 b:49.4 occ:1.00 OP1 a:C1791 1.9 50.9 1.0 OP2 a:U1792 2.0 52.2 1.0 P a:C1791 3.3 50.9 1.0 P a:U1792 3.4 52.2 1.0 OP2 a:C1791 4.0 50.9 1.0 OP2 a:G2671 4.1 63.8 1.0 O5' a:C1791 4.1 50.9 1.0 O5' a:U1792 4.2 52.2 1.0 C5 a:U1792 4.3 52.2 1.0 OP1 a:U1792 4.3 52.2 1.0 OP2 a:G2670 4.3 60.6 1.0 O3' a:A1790 4.4 51.3 1.0 C5' a:C1791 4.4 50.9 1.0 O3' a:C1791 4.4 50.9 1.0 C5' a:G2670 4.6 60.6 1.0 C3' a:C1791 4.6 50.9 1.0 C6 a:U1792 4.7 52.2 1.0

Magnesium binding site 7 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3107 b:52.0 occ:1.00 OP2 a:A1799 1.9 54.8 1.0 P a:A1799 3.3 54.8 1.0 O5' a:A1799 3.7 54.8 1.0 N7 a:A1800 3.9 56.0 1.0 OP1 a:A1799 4.1 54.8 1.0 N7 a:A1799 4.2 54.8 1.0 C8 a:A1799 4.3 54.8 1.0 N6 a:A1800 4.3 56.0 1.0 O3' a:A1798 4.4 53.4 1.0 C3' a:A1798 4.7 53.4 1.0 OP2 a:A1800 4.8 56.0 1.0 C5 a:A1800 4.8 56.0 1.0 C8 a:A1800 4.9 56.0 1.0

Magnesium binding site 8 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3108 b:56.8 occ:1.00 O2' a:A1893 3.9 60.9 1.0 N3 a:A1893 4.1 60.9 1.0 O3' a:A1894 4.4 59.2 1.0 C2' a:A1893 4.7 60.9 1.0 C2 a:A1893 4.8 60.9 1.0 C1' a:A1893 4.8 60.9 1.0

Magnesium binding site 9 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3109 b:84.8 occ:1.00 OP1 a:C2700 2.5 95.2 1.0 O3' a:C2731 3.2 82.8 1.0 O2' a:C2731 3.4 82.8 1.0 OP2 a:PSU2701 3.5 83.5 1.0 P a:C2700 3.7 95.2 1.0 O5' a:C2700 4.1 95.2 1.0 OP2 a:C2700 4.2 95.2 1.0 C3' a:C2731 4.2 82.8 1.0 O2' a:G2697 4.3 112.5 1.0 C2' a:C2731 4.4 82.8 1.0 P a:PSU2701 4.5 83.5 1.0 C5' a:C2700 4.7 95.2 1.0 OP1 a:PSU2701 4.9 83.5 1.0

Magnesium binding site 10 out of 30 in the Structure of Ychf with 50S Ribosomal Subunit (Local Map)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of Ychf with 50S Ribosomal Subunit (Local Map) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg3110 b:53.7 occ:1.00 OP2 a:A2832 2.0 58.0 1.0 OP2 a:G2835 2.0 55.7 1.0 P a:A2832 3.3 58.0 1.0 P a:G2835 3.3 55.7 1.0 OP1 a:A2832 3.8 58.0 1.0 OP1 a:G2835 3.8 55.7 1.0 O5' a:C2831 4.0 63.4 1.0 OP1 a:C2831 4.1 63.4 1.0 OP2 a:C2831 4.2 63.4 1.0 O3' a:U2834 4.2 59.4 1.0 O3' a:C2831 4.2 63.4 1.0 P a:C2831 4.2 63.4 1.0 O5' a:A2832 4.3 58.0 1.0 O5' a:U2834 4.4 59.4 1.0 O5' a:G2835 4.5 55.7 1.0 C3' a:C2831 4.5 63.4 1.0 C5' a:G2835 4.6 55.7 1.0 C4' a:U2834 4.7 59.4 1.0 C3' a:U2834 4.7 59.4 1.0 C5' a:C2831 4.8 63.4 1.0 OP2 a:U2834 4.8 59.4 1.0

X.Li, T.Yu, Q.Li, F.Zeng. Structure Basis of Translation Regulation By Ychf Bound to Ribosome To Be Published.