Magnesium in PDB 5lmu: Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)

The structure of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

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 - 70; Page 8, Binding sites: 71 - 80;

Binding sites:

The binding sites of Magnesium atom in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) (pdb code 5lmu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 80 binding sites of Magnesium where determined in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4), PDB code: 5lmu:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1601 b:50.0 occ:1.00 OP2 A:U252 2.3 50.0 1.0 OP2 A:C267 2.9 50.0 1.0 NZ Q:LYS67 2.9 50.0 1.0 O3' A:G251 3.3 50.0 1.0 P A:U252 3.4 50.0 1.0 O2' A:G266 3.5 50.0 1.0 OP2 A:C268 3.7 50.0 1.0 CE Q:LYS67 4.0 50.0 1.0 P A:C267 4.0 50.0 1.0 OP1 A:C268 4.3 50.0 1.0 OP1 A:C267 4.3 50.0 1.0 OP2 A:U253 4.3 50.0 1.0 O2' A:G251 4.4 50.0 1.0 O5' A:U252 4.4 50.0 1.0 P A:C268 4.4 50.0 1.0 CD Q:LYS67 4.5 50.0 1.0 OP1 A:U252 4.5 50.0 1.0 C3' A:G251 4.7 50.0 1.0 C2' A:G266 4.7 50.0 1.0 O5' A:C267 4.9 50.0 1.0

Magnesium binding site 2 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1602 b:50.0 occ:1.00 OP1 A:A315 2.1 50.0 1.0 P A:A315 3.1 50.0 1.0 OP2 A:A315 3.3 50.0 1.0 C5' A:A315 3.8 50.0 1.0 O5' A:A315 3.8 50.0 1.0 N7 A:G318 4.1 50.0 1.0 O3' A:C314 4.5 50.0 1.0 C8 A:G318 4.6 50.0 1.0 C4' A:A315 4.8 50.0 1.0

Magnesium binding site 3 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1603 b:50.0 occ:1.00 OP2 A:A172 3.4 50.0 1.0 N7 A:G148 3.5 50.0 1.0 O6 A:G148 3.7 50.0 1.0 C5 A:G148 4.2 50.0 1.0 C6 A:G148 4.3 50.0 1.0 C8 A:G148 4.5 50.0 1.0 P A:A172 4.8 50.0 1.0

Magnesium binding site 4 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1604 b:50.0 occ:1.00 OP1 A:U793 1.9 50.0 1.0 P A:U793 3.1 50.0 1.0 O3' A:A792 3.4 50.0 1.0 OP2 A:U793 4.0 50.0 1.0 MG A:MG1605 4.2 50.0 1.0 O5' A:U793 4.2 50.0 1.0 C5' A:U793 4.4 50.0 1.0 C3' A:A792 4.8 50.0 1.0 N6 A:A787 4.8 50.0 1.0 N7 A:G786 5.0 50.0 1.0

Magnesium binding site 5 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1605 b:50.0 occ:1.00 O4 A:U788 3.2 50.0 1.0 N7 A:A787 3.4 50.0 1.0 C4 A:U788 4.1 50.0 1.0 MG A:MG1604 4.2 50.0 1.0 N6 A:A787 4.2 50.0 1.0 C8 A:A787 4.3 50.0 1.0 C5 A:A787 4.4 50.0 1.0 O3' A:A792 4.5 50.0 1.0 N7 A:G786 4.6 50.0 1.0 OP2 A:G786 4.8 50.0 1.0 C6 A:A787 4.8 50.0 1.0 C5 A:U788 4.8 50.0 1.0

Magnesium binding site 6 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1606 b:50.0 occ:1.00 OP2 A:G285 3.7 50.0 1.0 OP2 A:A119 3.9 50.0 1.0 O4 A:U287 4.2 50.0 1.0 OP2 A:G286 4.4 50.0 1.0 OP1 A:A119 4.7 50.0 1.0 P A:A119 4.8 50.0 1.0 P A:G285 4.9 50.0 1.0 N7 A:G286 4.9 50.0 1.0 O5' A:G285 5.0 50.0 1.0

Magnesium binding site 7 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1607 b:50.0 occ:1.00 OP1 A:A1500 1.7 50.0 1.0 OP1 A:G1508 1.8 50.0 1.0 OP1 A:G1505 2.5 50.0 1.0 O3' A:G1504 3.0 50.0 1.0 P A:A1500 3.1 50.0 1.0 P A:G1508 3.1 50.0 1.0 P A:G1505 3.4 50.0 1.0 O3' A:A1507 3.6 50.0 1.0 OP2 A:A1500 3.8 50.0 1.0 OP2 A:G1508 3.8 50.0 1.0 O3' A:A1499 4.0 50.0 1.0 O5' A:A1500 4.1 50.0 1.0 O5' A:G1505 4.2 50.0 1.0 C5' A:G1505 4.2 50.0 1.0 C3' A:G1504 4.3 50.0 1.0 O5' A:G1508 4.3 50.0 1.0 O2' A:U1506 4.4 50.0 1.0 C5' A:G1508 4.6 50.0 1.0 OP2 A:G1505 4.6 50.0 1.0 C2' A:U1506 4.6 50.0 1.0 OP1 A:A1499 4.8 50.0 1.0 C5' A:A1500 4.8 50.0 1.0 OP1 A:G1521 4.9 50.0 1.0 O5' A:G1504 4.9 50.0 1.0 C3' A:A1507 5.0 50.0 1.0

Magnesium binding site 8 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1608 b:50.0 occ:1.00 N3 A:C121 1.9 50.0 1.0 O4 A:U125 2.0 50.0 1.0 C2 A:C121 2.7 50.0 1.0 O2 A:C121 2.7 50.0 1.0 C4 A:C121 3.0 50.0 1.0 C4 A:U125 3.0 50.0 1.0 O6 A:G124 3.1 50.0 1.0 O6 A:G126 3.1 50.0 1.0 O6 A:G236 3.1 50.0 1.0 N4 A:C121 3.3 50.0 1.0 N3 A:U125 3.4 50.0 1.0 N4 A:C235 3.8 50.0 1.0 C6 A:G126 3.9 50.0 1.0 N4 A:C237 4.0 50.0 1.0 C6 A:G124 4.0 50.0 1.0 N1 A:C121 4.0 50.0 1.0 C5 A:C121 4.3 50.0 1.0 C6 A:G236 4.3 50.0 1.0 C5 A:U125 4.3 50.0 1.0 C4 A:C235 4.5 50.0 1.0 N1 A:G126 4.5 50.0 1.0 N4 A:C123 4.6 50.0 1.0 C6 A:C121 4.7 50.0 1.0 C5 A:G124 4.7 50.0 1.0 C2 A:U125 4.7 50.0 1.0 N7 A:G124 4.8 50.0 1.0 C5 A:C235 4.8 50.0 1.0 N1 A:G124 4.9 50.0 1.0 N7 A:G236 4.9 50.0 1.0 C5 A:G126 5.0 50.0 1.0

Magnesium binding site 9 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1609 b:50.0 occ:1.00 OP2 A:A195 1.4 50.0 1.0 P A:A195 2.5 50.0 1.0 O5' A:A195 3.0 50.0 1.0 OP1 A:A195 3.4 50.0 1.0 C5' A:A195 3.4 50.0 1.0 O3' A:C194 3.8 50.0 1.0 O4 A:U180 4.0 50.0 1.0 C3' A:C194 4.1 50.0 1.0 O5' A:C194 4.3 50.0 1.0 OP2 A:C178 4.4 50.0 1.0 O6 A:G181 4.5 50.0 1.0 NZ T:LYS65 4.5 50.0 1.0 OP2 A:A179 4.6 50.0 1.0 N6 A:A179 4.8 50.0 1.0 N7 A:A179 4.9 50.0 1.0 C4' A:A195 4.9 50.0 1.0 OP1 A:C194 4.9 50.0 1.0 C5' A:C194 5.0 50.0 1.0 P A:C194 5.0 50.0 1.0

Magnesium binding site 10 out of 80 in the Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of Bacterial 30S-IF3-Mrna-Trna Translation Pre-Initiation Complex, Closed Form (State-4) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1610 b:50.0 occ:1.00 OP2 A:C749 1.7 50.0 1.0 OP2 A:G750 1.8 50.0 1.0 P A:C749 3.1 50.0 1.0 P A:G750 3.2 50.0 1.0 O2' A:C748 3.4 50.0 1.0 O5' A:C749 3.7 50.0 1.0 OP1 A:C749 3.9 50.0 1.0 N7 A:G750 4.0 50.0 1.0 C3' A:C749 4.0 50.0 1.0 OP1 A:G750 4.0 50.0 1.0 O3' A:C749 4.0 50.0 1.0 O5' A:G750 4.2 50.0 1.0 O3' A:C748 4.2 50.0 1.0 C8 A:G750 4.4 50.0 1.0 C2' A:C748 4.6 50.0 1.0 C5' A:C749 4.6 50.0 1.0 O6 A:G752 4.7 50.0 1.0 C4' A:C749 4.9 50.0 1.0 C3' A:C748 4.9 50.0 1.0

T.Hussain, J.L.Llacer, B.T.Wimberly, J.S.Kieft, V.Ramakrishnan. Large-Scale Movements of IF3 and Trna During Bacterial Translation Initiation. Cell V. 167 133 2016.
ISSN: ISSN 1097-4172
PubMed: 27662086
DOI: 10.1016/J.CELL.2016.08.074