Magnesium in PDB 7afl: Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 25;

Binding sites:

The binding sites of Magnesium atom in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) (pdb code 7afl). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 25 binding sites of Magnesium where determined in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome), PDB code: 7afl:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1601 b:126.3 occ:1.00 OP1 A:G803 3.2 195.7 1.0 P A:G803 4.3 195.7 1.0 OP2 A:U772 4.6 195.5 1.0 OP2 A:G803 4.7 195.7 1.0 O3' A:A802 4.8 205.2 1.0

Magnesium binding site 2 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1602 b:180.7 occ:1.00 O6 A:G417 3.5 212.5 1.0 N7 A:G416 3.7 209.0 1.0 O6 A:G416 3.8 209.0 1.0 O4 A:U426 3.8 207.7 1.0 N7 A:G417 3.9 212.5 1.0 OP2 A:A415 3.9 204.5 1.0 N4 A:C418 4.0 217.9 1.0 OP2 A:G416 4.0 209.0 1.0 C5 A:G416 4.2 209.0 1.0 O6 A:G425 4.2 210.2 1.0 C6 A:G416 4.2 209.0 1.0 C6 A:G417 4.3 212.5 1.0 C5 A:G417 4.4 212.5 1.0 P A:A415 4.5 204.5 1.0 O5' A:A415 4.5 204.5 1.0 OP1 A:A415 4.6 204.5 1.0 C8 A:G416 4.6 209.0 1.0 C4 A:U426 4.8 207.7 1.0

Magnesium binding site 3 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1603 b:193.2 occ:1.00 OP2 A:A560 1.9 188.6 1.0 OP1 A:U562 2.9 209.1 1.0 P A:A560 3.0 188.6 1.0 O3' A:A559 3.2 174.8 1.0 O5' A:A560 3.7 188.6 1.0 C5' A:A560 3.8 188.6 1.0 N2 A:G566 3.9 192.0 1.0 N1 A:G566 4.0 192.0 1.0 P A:U562 4.1 209.1 1.0 OP1 A:A563 4.2 196.0 1.0 OP2 A:G558 4.3 173.5 1.0 OP1 A:A560 4.3 188.6 1.0 O5' A:U562 4.4 209.1 1.0 C2 A:G566 4.5 192.0 1.0 O2' A:A559 4.5 174.8 1.0 C3' A:A559 4.6 174.8 1.0 OP1 A:G557 4.6 170.8 1.0 OP2 A:U562 4.6 209.1 1.0

Magnesium binding site 4 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1604 b:192.7 occ:1.00 OP1 A:U150 1.9 184.0 1.0 P A:U150 3.2 184.0 1.0 OP2 A:U150 3.8 184.0 1.0 O3' A:A149 4.1 188.0 1.0 O5' A:U150 4.3 184.0 1.0 C5' A:U150 4.8 184.0 1.0 N4 A:C169 5.0 195.8 1.0 OP2 A:C169 5.0 195.8 1.0

Magnesium binding site 5 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1605 b:166.4 occ:1.00 OP2 A:C352 1.9 173.6 1.0 P A:C352 2.5 173.6 1.0 OP1 A:C352 2.7 173.6 1.0 O5' A:C352 3.0 173.6 1.0 O4' A:C352 3.4 173.6 1.0 N7 A:G354 3.6 169.3 1.0 C4' A:C352 3.6 173.6 1.0 C5' A:C352 3.7 173.6 1.0 O3' A:G351 4.0 189.5 1.0 C8 A:G354 4.1 169.3 1.0 OP1 A:G354 4.2 169.3 1.0 N6 A:A59 4.4 164.8 1.0 N1 A:A59 4.5 164.8 1.0 C1' A:C352 4.5 173.6 1.0 C3' A:G351 4.7 189.5 1.0 C5 A:G354 4.8 169.3 1.0 O2 A:C330 4.8 163.3 1.0 C6 A:A59 5.0 164.8 1.0

Magnesium binding site 6 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1606 b:165.5 occ:1.00 O4 A:U593 2.7 177.1 1.0 O6 A:G592 3.1 178.0 1.0 O6 A:G646 3.2 166.9 1.0 C4 A:U593 3.7 177.1 1.0 N3 A:U593 3.9 177.1 1.0 N4 A:C647 4.0 167.1 1.0 C6 A:G592 4.0 178.0 1.0 O4 A:U594 4.1 169.6 1.0 C6 A:G646 4.3 166.9 1.0 N7 A:G592 4.4 178.0 1.0 C5 A:G592 4.5 178.0 1.0 N7 A:G646 4.6 166.9 1.0 O6 A:G645 4.7 159.5 1.0 C5 A:G646 4.8 166.9 1.0 C4 A:U594 4.9 169.6 1.0

Magnesium binding site 7 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1607 b:158.8 occ:1.00 OP2 A:A171 2.5 184.9 1.0 P A:A171 4.0 184.9 1.0 N7 A:A149 4.0 188.0 1.0 C8 A:A149 4.4 188.0 1.0 O4 A:U150 4.5 184.0 1.0 C3' A:U170 4.6 187.1 1.0 O5' A:U170 4.7 187.1 1.0 O3' A:U170 4.8 187.1 1.0 O5' A:A171 4.8 184.9 1.0 OP1 A:A171 4.9 184.9 1.0 C5 A:A149 4.9 188.0 1.0 C5 A:U150 5.0 184.0 1.0 OP2 A:U170 5.0 187.1 1.0

Magnesium binding site 8 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1608 b:139.3 occ:1.00 OP2 A:G731 3.0 184.0 1.0 O3' A:G730 3.8 178.2 1.0 P A:G731 3.9 184.0 1.0 C5' A:G730 4.1 178.2 1.0 O2' A:A816 4.3 175.7 1.0 OP1 A:G730 4.4 178.2 1.0 OP1 A:G731 4.5 184.0 1.0 N1 A:A814 4.5 176.4 1.0 O3' A:G1526 4.6 182.2 1.0 C4' A:G730 4.6 178.2 1.0 OP2 A:A816 4.6 175.7 1.0 C3' A:G730 4.6 178.2 1.0 O5' A:G730 4.9 178.2 1.0 N6 A:A814 5.0 176.4 1.0

Magnesium binding site 9 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1609 b:194.8 occ:1.00 OP2 A:C805 2.0 194.2 1.0 OP1 A:A768 2.2 166.9 1.0 P A:C805 2.2 194.2 1.0 O3' A:U804 2.4 191.3 1.0 OP1 A:C805 2.5 194.2 1.0 C5' A:U804 2.5 191.3 1.0 C4' A:U804 2.8 191.3 1.0 C3' A:U804 3.0 191.3 1.0 O5' A:U804 3.3 191.3 1.0 P A:A768 3.5 166.9 1.0 O5' A:C805 3.8 194.2 1.0 OP1 A:U804 3.9 191.3 1.0 OP2 A:A768 3.9 166.9 1.0 O4' A:U804 4.3 191.3 1.0 P A:U804 4.3 191.3 1.0 C2' A:U804 4.4 191.3 1.0 O3' A:A767 4.4 162.3 1.0 O5' A:A768 4.5 166.9 1.0 O2' A:U804 4.6 191.3 1.0 C5' A:C805 4.8 194.2 1.0

Magnesium binding site 10 out of 25 in the Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Bacterial 30S Ribosomal Subunit Assembly Complex State D (Multibody Refinement For Body Domain of 30S Ribosome) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1610 b:169.4 occ:1.00 O2 A:C631 2.0 180.3 1.0 OP1 A:A607 2.2 152.8 1.0 C2 A:C631 3.1 180.3 1.0 OP2 A:A608 3.3 148.1 1.0 P A:A607 3.5 152.8 1.0 N3 A:C631 3.6 180.3 1.0 OP2 A:A607 4.0 152.8 1.0 N1 A:C631 4.3 180.3 1.0 O3' A:G606 4.4 163.8 1.0 N1 A:A630 4.5 170.5 1.0 O5' A:A607 4.5 152.8 1.0 P A:A608 4.5 148.1 1.0 C3' A:G606 4.6 163.8 1.0 C2' A:G606 4.6 163.8 1.0 C1' A:C631 4.6 180.3 1.0 C2' A:C631 4.8 180.3 1.0 C5' A:A607 4.8 152.8 1.0 C2 A:A630 4.9 170.5 1.0 C4 A:C631 4.9 180.3 1.0 O3' A:A607 5.0 152.8 1.0

A.Schedlbauer, I.Iturrioz, B.Ochoa-Lizarralde, T.Diercks, J.P.Lopez-Alonso, J.L.Lavin, T.Kaminishi, R.Capuni, N.Dhimole, E.De Astigarraga, D.Gil-Carton, P.Fucini, S.R.Connell. A Conserved Rrna Switch Is Central to Decoding Site Maturation on the Small Ribosomal Subunit. Sci Adv V. 7 2021.
ISSN: ESSN 2375-2548
PubMed: 34088665
DOI: 10.1126/SCIADV.ABF7547