Magnesium in PDB 6s0k: Ribosome Nascent Chain in Complex with Seca

The structure of Ribosome Nascent Chain in Complex with Seca also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 68;

Binding sites:

The binding sites of Magnesium atom in the Ribosome Nascent Chain in Complex with Seca (pdb code 6s0k). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 68 binding sites of Magnesium where determined in the Ribosome Nascent Chain in Complex with Seca, PDB code: 6s0k:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3001 b:59.4 occ:1.00 OP2 A:C1298 2.1 66.5 1.0 OP2 A:C1639 2.5 65.2 1.0 P A:C1298 3.5 66.5 1.0 P A:C1639 3.9 65.2 1.0 O5' A:C1638 4.1 63.5 1.0 OP1 A:C1298 4.3 66.5 1.0 O5' A:C1298 4.3 66.5 1.0 OP2 A:C1638 4.5 63.5 1.0 O3' A:C1297 4.5 67.3 1.0 OP2 A:C1297 4.5 67.3 1.0 O3' A:C1638 4.6 63.5 1.0 C3' A:C1638 4.6 63.5 1.0 OP1 A:C1638 4.6 63.5 1.0 P A:C1638 4.6 63.5 1.0 C3' A:C1297 4.6 67.3 1.0 OP1 A:C1639 4.6 65.2 1.0 O5' A:C1297 4.6 67.3 1.0 OP1 A:C1297 4.7 67.3 1.0 O6 A:G1299 4.7 65.7 1.0 P A:C1297 4.8 67.3 1.0 N7 A:G1299 4.8 65.7 1.0 C5' A:C1638 5.0 63.5 1.0 O5' A:C1639 5.0 65.2 1.0 C5' A:C1639 5.0 65.2 1.0

Magnesium binding site 2 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3002 b:56.2 occ:1.00 OP1 A:C1658 2.1 65.0 1.0 CE1 D:HIS140 3.1 62.0 1.0 P A:C1658 3.4 65.0 1.0 NE2 D:HIS140 3.5 62.0 1.0 O5' A:C1658 3.9 65.0 1.0 O3' A:A743 4.1 66.6 1.0 OP2 A:G1659 4.1 65.0 1.0 ND1 D:HIS140 4.1 62.0 1.0 C5' A:C1658 4.2 65.0 1.0 OP1 A:U744 4.2 67.1 1.0 O D:ASN136 4.2 65.7 1.0 OP2 A:C1658 4.2 65.0 1.0 O3' A:U1657 4.6 63.1 1.0 CD2 D:HIS140 4.8 62.0 1.0 O2' A:A743 4.8 66.6 1.0 N D:LEU138 4.8 63.4 1.0 P A:U744 4.8 67.1 1.0

Magnesium binding site 3 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3003 b:44.1 occ:1.00 OP1 A:G831 3.5 61.8 1.0 OP1 A:U568 3.8 64.3 1.0 N7 A:A945 3.9 64.7 1.0 OP2 A:C944 4.1 62.7 1.0 C8 A:A945 4.2 64.7 1.0 OP1 A:C944 4.5 62.7 1.0 N1 A:A2448 4.7 64.7 1.0 P A:C944 4.9 62.7 1.0 O M:LYS36 4.9 60.9 1.0 P A:G831 4.9 61.8 1.0 N6 A:A2448 5.0 64.7 1.0

Magnesium binding site 4 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3004 b:55.0 occ:1.00 OP2 A:G1187 2.2 65.0 1.0 P A:G1187 3.3 65.0 1.0 O5' A:G1187 3.7 65.0 1.0 OP2 A:C816 3.7 67.4 1.0 OP1 A:G1187 3.8 65.0 1.0 OP2 A:C817 4.1 66.3 1.0 O6 A:G818 4.3 65.0 1.0 N7 A:G1187 4.3 65.0 1.0 C8 A:G1187 4.4 65.0 1.0 O2' A:G1185 4.5 75.7 1.0 O3' A:G1186 4.6 66.4 1.0 O3' A:G1185 4.8 75.7 1.0 P A:C816 4.8 67.4 1.0

Magnesium binding site 5 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3005 b:59.4 occ:1.00 OP2 A:G862 2.1 71.4 1.0 P A:G862 3.5 71.4 1.0 OP1 A:A910 3.7 68.3 1.0 O5' A:G862 4.0 71.4 1.0 N7 A:A863 4.2 72.5 1.0 N6 A:A863 4.3 72.5 1.0 N7 A:G862 4.3 71.4 1.0 OP2 A:A861 4.3 71.1 1.0 OP1 A:A861 4.4 71.1 1.0 OP1 A:G862 4.4 71.4 1.0 C8 A:G862 4.5 71.4 1.0 O3' A:A861 4.6 71.1 1.0 O5' A:A861 4.6 71.1 1.0 P A:A861 4.6 71.1 1.0 P A:A910 4.8 68.3 1.0 C3' A:A861 4.9 71.1 1.0 OP2 A:A910 4.9 68.3 1.0

Magnesium binding site 6 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3006 b:50.0 occ:1.00 OP1 A:A973 3.2 63.0 1.0 O2' A:A972 4.0 62.5 1.0 OP2 A:G570 4.0 64.2 1.0 N1 A:A821 4.2 64.1 1.0 OP2 A:U569 4.2 63.5 1.0 OP1 A:G570 4.3 64.2 1.0 C5 A:U568 4.3 64.3 1.0 P A:A973 4.3 63.0 1.0 C2 A:A821 4.5 64.1 1.0 C6 A:U568 4.5 64.3 1.0 N6 A:A820 4.6 63.8 1.0 P A:G570 4.6 64.2 1.0 N1 A:A820 4.6 63.8 1.0 O3' A:A972 4.7 62.5 1.0 OP2 A:A973 4.7 63.0 1.0 C2' A:A972 5.0 62.5 1.0

Magnesium binding site 7 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3007 b:57.5 occ:1.00 OP1 A:C678 2.3 63.1 1.0 OP1 A:C2072 2.6 62.8 1.0 O3' A:A2071 3.6 63.1 1.0 P A:C678 3.7 63.1 1.0 P A:C2072 3.7 62.8 1.0 O2' A:A793 4.0 64.6 1.0 N3 A:A793 4.1 64.6 1.0 C2' A:A793 4.2 64.6 1.0 O5' A:C678 4.3 63.1 1.0 OP2 A:C678 4.4 63.1 1.0 C2 A:A793 4.4 64.6 1.0 C5' A:C2072 4.5 62.8 1.0 C4 A:A793 4.7 64.6 1.0 O5' A:C2072 4.7 62.8 1.0 OP2 A:C679 4.7 63.6 1.0 OP2 A:A793 4.7 64.6 1.0 O3' A:A677 4.8 64.2 1.0 C5' A:C678 4.8 63.1 1.0 OP2 A:C2072 4.8 62.8 1.0 C3' A:A2071 4.9 63.1 1.0

Magnesium binding site 8 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3008 b:58.7 occ:1.00 OP2 A:G410 2.1 72.6 1.0 P A:G410 3.5 72.6 1.0 O5' A:G409 4.2 73.4 1.0 OP1 A:G410 4.2 72.6 1.0 OP2 A:C413 4.2 78.2 1.0 O3' A:G409 4.3 73.4 1.0 C3' A:G409 4.4 73.4 1.0 O2' A:A391 4.4 72.5 1.0 OP1 A:G409 4.5 73.4 1.0 O3' A:A391 4.5 72.5 1.0 OP2 A:G409 4.5 73.4 1.0 OP1 A:U392 4.6 70.8 1.0 O5' A:G410 4.6 72.6 1.0 P A:G409 4.6 73.4 1.0 C5' A:G409 4.8 73.4 1.0

Magnesium binding site 9 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3009 b:56.5 occ:1.00 OP1 A:A945 2.1 64.7 1.0 P A:A945 3.5 64.7 1.0 O4 A:U832 3.8 61.5 1.0 OP2 A:G831 4.0 61.8 1.0 N7 A:G831 4.1 61.8 1.0 OP2 A:A945 4.3 64.7 1.0 O5' A:A945 4.4 64.7 1.0 C2' A:C944 4.4 62.7 1.0 O3' A:C944 4.5 62.7 1.0 C3' A:C944 4.5 62.7 1.0 C4' A:A829 4.6 67.1 1.0 C5' A:G830 4.7 65.7 1.0 C4 A:U832 4.7 61.5 1.0 C8 A:G831 4.9 61.8 1.0 O4' A:A829 4.9 67.1 1.0 O6 A:G831 4.9 61.8 1.0

Magnesium binding site 10 out of 68 in the Ribosome Nascent Chain in Complex with Seca


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Ribosome Nascent Chain in Complex with Seca within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3010 b:59.1 occ:1.00 OP2 A:A1269 2.1 66.4 1.0 OP1 A:A2005 2.1 62.7 1.0 P A:A1269 3.5 66.4 1.0 P A:A2005 3.6 62.7 1.0 O5' A:A1269 4.1 66.4 1.0 N7 A:A1269 4.1 66.4 1.0 C5' A:A2005 4.1 62.7 1.0 OP2 A:C2006 4.3 63.8 1.0 O5' A:A2005 4.3 62.7 1.0 OP2 A:A1268 4.3 67.6 1.0 C8 A:A1269 4.3 66.4 1.0 O3' A:A1268 4.4 67.6 1.0 O3' A:G2004 4.5 63.9 1.0 O5' A:A1268 4.5 67.6 1.0 C3' A:A1268 4.5 67.6 1.0 OP1 A:A1268 4.6 67.6 1.0 OP2 A:A2005 4.6 62.7 1.0 OP1 A:A1269 4.6 66.4 1.0 P A:A1268 4.6 67.6 1.0 C5' A:A1268 4.7 67.6 1.0

S.Wang, A.Jomaa, M.Jaskolowski, C.I.Yang, N.Ban, S.O.Shan. The Molecular Mechanism of Cotranslational Membrane Protein Recognition and Targeting By Seca. Nat.Struct.Mol.Biol. V. 26 919 2019.
ISSN: ESSN 1545-9985
PubMed: 31570874
DOI: 10.1038/S41594-019-0297-8