Magnesium in PDB 6yhs: Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit

The structure of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit 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 - 70; Page 8, Binding sites: 71 - 80; Page 9, Binding sites: 81 - 90; Page 10, Binding sites: 91 - 100; Page 11, Binding sites: 101 - 110; Page 12, Binding sites: 111 - 120; Page 13, Binding sites: 121 - 130; Page 14, Binding sites: 131 - 140; Page 15, Binding sites: 141 - 150; Page 16, Binding sites: 151 - 160;

Binding sites:

The binding sites of Magnesium atom in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit (pdb code 6yhs). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 160 binding sites of Magnesium where determined in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit, PDB code: 6yhs:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3001 b:3.1 occ:1.00 O6 1:G17 4.3 7.9 1.0 O4 1:U16 4.4 7.9 1.0 O4 1:U513 4.5 7.9 1.0 O6 1:G514 4.6 7.9 1.0 N4 1:C515 4.8 7.9 1.0

Magnesium binding site 2 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3002 b:9.9 occ:1.00 OP2 1:A439 4.2 7.9 1.0 O6 1:G466 4.3 7.9 1.0 O6 1:G465 4.6 7.9 1.0 O4 1:U29 4.6 7.9 1.0 N4 1:C31 4.7 7.9 1.0 C5 1:U29 4.7 7.9 1.0 O5' 1:A439 4.7 7.9 1.0 OP2 1:U29 4.7 7.9 1.0 O6 1:G30 4.8 7.9 1.0 O2' 1:A439 5.0 7.9 1.0 C4 1:U29 5.0 7.9 1.0 C2' 1:A439 5.0 7.9 1.0 OP2 1:A28 5.0 7.9 1.0

Magnesium binding site 3 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3003 b:7.0 occ:1.00 OP2 1:U120 2.0 2.4 1.0 P 1:U120 3.4 2.4 1.0 OP1 1:G121 4.1 11.1 1.0 N7 1:G122 4.1 7.9 1.0 O3' 1:A119 4.2 6.2 1.0 OP1 1:U120 4.2 2.4 1.0 O6 1:G122 4.3 7.9 1.0 O5' 1:U120 4.4 2.4 1.0 O6 1:G123 4.4 6.0 1.0 C5' 1:U120 4.5 2.4 1.0 OP2 1:G122 4.5 7.9 1.0 N7 1:G121 4.8 11.1 1.0 C3' 1:U120 4.8 2.4 1.0 C5 1:G122 4.9 7.9 1.0 C6 1:G122 4.9 7.9 1.0 N7 1:G123 5.0 6.0 1.0

Magnesium binding site 4 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3004 b:5.0 occ:1.00 OP1 1:U120 2.2 2.4 1.0 P 1:U120 3.5 2.4 1.0 O6 1:G124 3.7 7.9 1.0 OP2 1:U120 4.1 2.4 1.0 O5' 1:U120 4.3 2.4 1.0 OP2 1:G123 4.3 6.0 1.0 N7 1:G123 4.4 6.0 1.0 N7 1:G124 4.4 7.9 1.0 C5' 1:U120 4.5 2.4 1.0 C6 1:G124 4.6 7.9 1.0 O3' 1:A119 4.7 6.2 1.0 C3' 1:A119 4.9 6.2 1.0 C5 1:G124 4.9 7.9 1.0 C8 1:G123 4.9 6.0 1.0

Magnesium binding site 5 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3005 b:13.8 occ:1.00 OP2 1:G444 2.8 7.9 1.0 O C:GLY79 3.2 7.9 1.0 OP2 1:G442 3.7 7.9 1.0 O C:GLY80 4.0 7.9 1.0 C C:GLY79 4.0 7.9 1.0 P 1:G444 4.1 7.9 1.0 CG1 C:VAL51 4.5 8.0 1.0 CA C:GLY79 4.5 7.9 1.0 CG2 C:VAL51 4.6 8.0 1.0 C5' 1:G444 4.6 7.9 1.0 OP1 1:G444 4.7 7.9 1.0 C C:GLY80 4.8 7.9 1.0 OP2 1:U443 4.8 7.9 1.0 O5' 1:G444 4.8 7.9 1.0 N C:GLY80 5.0 7.9 1.0 P 1:G442 5.0 7.9 1.0

Magnesium binding site 6 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3006 b:5.0 occ:1.00 O6 1:G442 2.2 7.9 1.0 OP1 1:A445 2.3 7.9 1.0 C6 1:G442 3.4 7.9 1.0 P 1:A445 3.6 7.9 1.0 C5 1:G442 4.1 7.9 1.0 O5' 1:A445 4.2 7.9 1.0 N7 1:G442 4.2 7.9 1.0 C5' 1:A445 4.3 7.9 1.0 N7 1:A441 4.4 7.9 1.0 OP2 1:A445 4.4 7.9 1.0 N1 1:G442 4.4 7.9 1.0 OP2 1:A441 4.6 7.9 1.0 OP1 1:A446 4.6 7.6 1.0 O3' 1:G444 4.7 7.9 1.0 C5' 1:U440 4.8 7.9 1.0 N6 1:A441 4.9 7.9 1.0 OP2 1:A463 5.0 7.9 1.0

Magnesium binding site 7 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3007 b:6.2 occ:1.00 OP1 1:U558 2.3 7.9 1.0 P 1:U558 3.7 7.9 1.0 O3' 1:U557 4.0 7.9 1.0 O4 1:U801 4.0 7.9 1.0 N7 1:G800 4.3 7.9 1.0 O5' 1:U558 4.6 7.9 1.0 OP2 1:G800 4.6 7.9 1.0 C5' 1:U558 4.6 7.9 1.0 OP2 1:U558 4.7 7.9 1.0 OP2 1:G799 4.7 7.9 1.0 C8 1:G800 4.8 7.9 1.0 C4 1:U801 4.9 7.9 1.0

Magnesium binding site 8 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3008 b:7.9 occ:1.00 OP2 1:A565 2.7 7.9 1.0 P 1:A565 3.6 7.9 1.0 OP1 1:A565 3.6 7.9 1.0 OP1 1:U564 4.0 7.9 1.0 O4 1:U567 4.1 7.9 1.0 O6 1:G568 4.1 7.9 1.0 C5 1:U567 4.3 7.9 1.0 C4 1:U567 4.5 7.9 1.0 O3' 1:U564 4.7 7.9 1.0 O5' 1:A565 4.7 7.9 1.0 C3' 1:U564 4.7 7.9 1.0 C4' 1:U564 4.7 7.9 1.0 OP2 1:U567 4.8 7.9 1.0 C5' 1:U564 4.8 7.9 1.0 N4 1:C555 4.8 7.9 1.0 N6 1:A554 4.9 7.9 1.0

Magnesium binding site 9 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3009 b:9.6 occ:1.00 N4 1:C575 4.0 7.9 1.0 O2' 1:C1239 4.2 7.9 1.0 N7 1:G574 4.2 7.9 1.0 OP1 1:A1241 4.3 7.9 1.0 OP2 1:A573 4.4 7.9 1.0 O6 1:G576 4.5 7.9 1.0 C5' 1:G1240 4.7 7.9 1.0 O6 1:G574 4.8 7.9 1.0

Magnesium binding site 10 out of 160 in the Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Acinetobacter Baumannii Ribosome-Amikacin Complex - 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg3010 b:10.8 occ:1.00 O6 1:G610 4.2 7.9 1.0 O6 1:G609 4.2 10.1 1.0 N7 1:G609 4.3 10.1 1.0 OP2 1:A607 4.4 15.6 1.0 N7 1:G608 4.5 14.2 1.0 OP1 1:A607 4.6 15.6 1.0 O6 1:G608 4.7 14.2 1.0 OP2 1:G608 4.9 14.2 1.0 P 1:A607 4.9 15.6 1.0 C6 1:G610 4.9 7.9 1.0

D.Nicholson, T.A.Edwards, A.J.O'neill, N.A.Ranson. Structure of the 70S Ribosome From the Human Pathogen Acinetobacter Baumannii in Complex with Clinically Relevant Antibiotics. Structure V. 28 1087 2020.
ISSN: ISSN 0969-2126
PubMed: 32857965
DOI: 10.1016/J.STR.2020.08.004