Magnesium in PDB 9h9i: Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112

The structure of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 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 - 49;

Binding sites:

The binding sites of Magnesium atom in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 (pdb code 9h9i). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 49 binding sites of Magnesium where determined in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112, PDB code: 9h9i:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1601 b:43.6 occ:1.00 O N:SER58 4.0 48.6 1.0 O N:GLN60 4.0 49.1 1.0 OP1 1:A1360 4.3 47.8 1.0 O2 1:C980 4.4 45.4 1.0 O6 1:G1361 4.4 46.6 1.0 N3 1:C980 4.6 45.4 1.0 N7 1:A1360 4.7 47.8 1.0 CD N:ARG61 4.7 47.4 1.0 N4 1:C979 4.8 45.1 1.0 O3' 1:C1359 4.8 48.1 1.0 C2 1:C980 5.0 45.4 1.0

Magnesium binding site 2 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1602 b:47.8 occ:1.00 N7 1:G1047 4.6 61.7 1.0 N7 1:G1048 4.8 58.9 1.0 O6 1:G1048 4.9 58.9 1.0 OP2 1:G1047 4.9 61.7 1.0

Magnesium binding site 3 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1603 b:53.4 occ:1.00 OP2 1:A1110 2.1 58.1 1.0 P 1:A1110 3.2 58.1 1.0 OP1 1:A1110 3.6 58.1 1.0 O2 1:U1189 3.7 55.1 1.0 O5' 1:A1110 3.7 58.1 1.0 OP2 1:A1111 4.5 61.9 1.0 C2 1:U1189 4.5 55.1 1.0 O3' 1:C1109 4.5 57.3 1.0 OP1 1:C1109 4.6 57.3 1.0 N6 1:A1188 4.7 54.5 1.0 OP2 1:C1109 4.7 57.3 1.0 N3 1:U1189 4.7 55.1 1.0 N7 1:A1111 4.9 61.9 1.0 C5' 1:A1110 4.9 58.1 1.0

Magnesium binding site 4 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1604 b:46.2 occ:1.00 O6 1:G1370 2.5 53.0 1.0 C6 1:G1370 3.3 53.0 1.0 N7 1:G1370 3.4 53.0 1.0 C5 1:G1370 3.6 53.0 1.0 N4 1:C1352 3.9 54.4 1.0 O6 1:G1371 4.2 54.0 1.0 O4 1:U1351 4.4 55.4 1.0 N7 1:G1371 4.4 54.0 1.0 N1 1:G1370 4.5 53.0 1.0 C8 1:G1370 4.6 53.0 1.0 N4 1:C1369 4.9 51.9 1.0 C4 1:G1370 4.9 53.0 1.0 C6 1:G1371 5.0 54.0 1.0

Magnesium binding site 5 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1605 b:57.3 occ:1.00 O6 1:G1177 3.7 67.6 1.0 N7 1:A1176 3.8 70.4 1.0 N7 1:G1175 4.3 74.3 1.0 O2' 1:G1181 4.4 65.6 1.0 O6 1:G1182 4.5 67.4 1.0 N6 1:A1176 4.5 70.4 1.0 C6 1:G1177 4.7 67.6 1.0 C8 1:G1175 4.7 74.3 1.0 C8 1:A1176 4.7 70.4 1.0 C5 1:G1175 4.7 74.3 1.0 OP2 1:A1176 4.8 70.4 1.0 C5 1:A1176 4.8 70.4 1.0

Magnesium binding site 6 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1606 b:55.1 occ:1.00 OP2 1:A1287 3.5 61.4 1.0 P 1:A1287 4.7 61.4 1.0 O3' 1:U1286 4.7 76.6 1.0

Magnesium binding site 7 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1607 b:56.3 occ:1.00 OP1 1:C1200 3.7 55.1 1.0 OP2 1:C1051 4.3 61.2 1.0 OP1 1:C1051 4.6 61.2 1.0 O2' 1:C962 4.7 49.7 1.0 OP2 1:U1052 4.7 61.0 1.0 P 1:C1200 4.8 55.1 1.0 OP1 1:A1201 4.8 53.1 1.0 C8 1:A1201 4.9 53.1 1.0 P 1:C1051 5.0 61.2 1.0

Magnesium binding site 8 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1608 b:53.9 occ:1.00 OP2 1:G945 2.8 59.4 1.0 OP1 1:G944 2.9 60.3 1.0 P 1:G944 4.0 60.3 1.0 P 1:G945 4.0 59.4 1.0 OP2 1:A946 4.1 55.9 1.0 O5' 1:G944 4.3 60.3 1.0 OP1 1:G945 4.5 59.4 1.0 OP2 1:G944 4.5 60.3 1.0 N7 1:A946 4.5 55.9 1.0 C5' 1:G944 4.7 60.3 1.0 O5' 1:G945 4.7 59.4 1.0

Magnesium binding site 9 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1609 b:58.4 occ:1.00 O6 1:G1178 2.2 63.9 1.0 C6 1:G1178 3.4 63.9 1.0 N7 1:G1178 4.1 63.9 1.0 C5 1:G1178 4.1 63.9 1.0 N7 1:G1177 4.1 67.6 1.0 NH1 I:ARG99 4.2 63.7 1.0 OP2 1:G1177 4.3 67.6 1.0 N1 1:G1178 4.5 63.9 1.0 OP2 1:A1176 4.6 70.4 1.0 CD I:ARG99 4.9 63.7 1.0 O6 1:G1177 4.9 67.6 1.0 C8 1:G1177 4.9 67.6 1.0

Magnesium binding site 10 out of 49 in the Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Complex 2 (Head) 30S-IF1-IF3-Trna-GE81112 within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg1610 b:56.8 occ:1.00 OP1 1:G1068 2.3 57.3 1.0 OP1 1:G1094 2.5 63.2 1.0 P 1:G1068 3.4 57.3 1.0 OP2 1:G1068 3.7 57.3 1.0 P 1:G1094 3.9 63.2 1.0 O3' 1:A1067 4.5 58.2 1.0 O5' 1:G1068 4.6 57.3 1.0 OP2 1:G1094 4.6 63.2 1.0 C5' 1:G1094 4.7 63.2 1.0 O5' 1:G1094 4.7 63.2 1.0 C3' 1:A1067 4.7 58.2 1.0 O3' 1:A1093 4.9 64.6 1.0

A.Schedlbauer, X.Han, W.Van Bakel, T.Kaminishi, B.Ochoa-Lizarralde, I.Iturrioz, R.Capuni, R.Parry, R.Zegarra, D.Gil-Carton, J.P.Lopez-Alonso, K.Barragan Sanz, L.Brandi, C.O.Gualerzi, P.Fucini, S.R.Connell. A Binding Site For the Antibiotic GE81112 in the Ribosomal Mrna Channel. Biorxiv 2024.
ISSN: ISSN 2692-8205
PubMed: 39386670
DOI: 10.1101/2024.09.26.614503