Magnesium in PDB 7m4v: A. Baumannii Ribosome-Eravacycline Complex: 50S

Other elements in 7m4v:

The structure of A. Baumannii Ribosome-Eravacycline Complex: 50S also contains other interesting chemical elements:

Fluorine (F) 2 atoms
Zinc (Zn) 1 atom

Magnesium Binding Sites:

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 - 159;

Binding sites:

The binding sites of Magnesium atom in the A. Baumannii Ribosome-Eravacycline Complex: 50S (pdb code 7m4v). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 159 binding sites of Magnesium where determined in the A. Baumannii Ribosome-Eravacycline Complex: 50S, PDB code: 7m4v:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 159 in 7m4v

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Magnesium binding site 1 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3203

b:0.0
occ:1.00
O A:HOH4096 2.0 0.0 1.0
O A:HOH3798 2.0 0.0 1.0
O A:HOH4085 2.4 0.0 1.0
O A:HOH3806 2.4 0.0 1.0
OP2 A:A572 2.6 0.0 1.0
O A:HOH3670 3.0 0.0 1.0
O A:HOH3711 3.6 0.0 1.0
P A:A572 3.7 0.0 1.0
O A:HOH3780 3.8 0.0 1.0
O A:HOH4081 3.9 0.0 1.0
OP1 A:A572 3.9 0.0 1.0
O A:HOH3927 4.0 0.0 1.0
O6 A:G575 4.4 0.0 1.0
O4 A:U574 4.6 0.0 1.0
O5' A:A572 4.6 0.0 1.0
C5 A:U574 4.7 0.0 1.0
OP1 A:U571 4.7 0.0 1.0
C5' A:A572 4.7 0.0 1.0
OP2 A:U574 4.9 0.0 1.0
O3' A:U571 4.9 0.0 1.0
C4 A:U574 4.9 0.0 1.0

Magnesium binding site 2 out of 159 in 7m4v

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Magnesium binding site 2 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3204

b:0.0
occ:1.00
O A:HOH3741 1.9 0.0 1.0
O A:HOH3936 2.0 0.0 1.0
O A:HOH3661 2.0 0.0 1.0
O A:HOH4054 2.5 0.0 1.0
O A:HOH3764 2.7 0.0 1.0
O A:HOH3535 2.9 0.0 1.0
O4 A:U2030 3.9 0.0 1.0
O A:HOH3711 4.1 0.0 1.0
O Z:HOH101 4.1 0.0 1.0
O2' A:A2050 4.1 0.0 1.0
O6 A:G2031 4.5 0.0 1.0
OP2 A:C2051 4.6 0.0 1.0
C4 A:U2030 4.7 0.0 1.0
N7 A:A572 4.7 0.0 1.0
C8 A:A572 4.7 0.0 1.0
O3' A:A2050 4.7 0.0 1.0
C5 A:U2030 4.8 0.0 1.0
N7 A:G2031 4.8 0.0 1.0
OP1 A:A572 4.8 0.0 1.0

Magnesium binding site 3 out of 159 in 7m4v

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Magnesium binding site 3 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3205

b:0.0
occ:1.00
O A:HOH3755 2.0 0.0 1.0
O Z:HOH101 2.2 0.0 1.0
O A:HOH3581 2.3 0.0 1.0
O A:HOH4148 2.5 0.0 1.0
O A:HOH4154 2.5 0.0 1.0
OP1 A:C2051 3.0 0.0 1.0
O Z:HOH102 3.0 0.0 1.0
OP2 A:C2051 3.4 0.0 1.0
O A:HOH3936 3.7 0.0 1.0
P A:C2051 3.7 0.0 1.0
OE1 Z:GLN5 4.0 0.0 1.0
O A:HOH3853 4.1 0.0 1.0
O A:HOH4081 4.2 0.0 1.0
O A:HOH4085 4.3 0.0 1.0
O A:HOH3711 4.4 0.0 1.0
CD Z:GLN5 4.4 0.0 1.0
NE2 Z:GLN5 4.5 0.0 1.0
O5' A:C2051 4.7 0.0 1.0
O3' A:A2050 4.9 0.0 1.0

Magnesium binding site 4 out of 159 in 7m4v

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Magnesium binding site 4 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3206

b:0.0
occ:1.00
OP2 A:G576 1.9 0.0 1.0
O A:HOH3813 2.0 0.0 1.0
O A:HOH3748 2.4 0.0 1.0
O A:HOH3749 2.5 0.0 1.0
O A:HOH3418 2.5 0.0 1.0
O A:HOH3533 2.8 0.0 1.0
P A:G576 3.3 0.0 1.0
OP1 A:C2013 3.7 0.0 1.0
O5' A:G576 3.8 0.0 1.0
OP1 A:G576 4.1 0.0 1.0
O A:HOH3678 4.3 0.0 1.0
O A:HOH3666 4.3 0.0 1.0
OP2 A:G2014 4.4 0.0 1.0
O3' A:G575 4.4 0.0 1.0
C8 A:G576 4.5 0.0 1.0
OP2 A:G575 4.5 0.0 1.0
C3' A:G575 4.5 0.0 1.0
N7 A:G576 4.5 0.0 1.0
O5' A:G575 4.6 0.0 1.0
P A:C2013 4.6 0.0 1.0
OP2 A:C2013 4.6 0.0 1.0
OP2 A:G577 4.8 0.0 1.0

Magnesium binding site 5 out of 159 in 7m4v

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Magnesium binding site 5 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3207

b:0.0
occ:1.00
O A:HOH3598 1.9 0.0 1.0
O A:HOH3570 2.0 0.0 1.0
OP1 A:A2573 2.0 0.0 1.0
OP1 A:G2572 2.1 0.0 1.0
O A:HOH3614 2.4 0.0 1.0
O A:HOH3788 2.5 0.0 1.0
P A:A2573 3.3 0.0 1.0
P A:G2572 3.3 0.0 1.0
O3' A:C2571 3.6 0.0 1.0
OP2 A:A2573 3.8 0.0 1.0
O3' A:G2572 4.2 0.0 1.0
OP2 A:A2048 4.3 0.0 1.0
OP2 A:G2049 4.3 0.0 1.0
O5' A:G2572 4.3 0.0 1.0
C3' A:G2572 4.3 0.0 1.0
C5' A:G2572 4.3 0.0 1.0
OP2 A:G2572 4.4 0.0 1.0
O5' A:A2573 4.4 0.0 1.0
N2 A:G2572 4.5 0.0 1.0
OP1 A:G2049 4.5 0.0 1.0
N3 A:G2572 4.7 0.0 1.0
C2 A:G2572 4.7 0.0 1.0
P A:G2049 4.9 0.0 1.0
C3' A:C2571 4.9 0.0 1.0
C4' A:G2572 5.0 0.0 1.0

Magnesium binding site 6 out of 159 in 7m4v

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Magnesium binding site 6 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3208

b:0.0
occ:1.00
O A:HOH4137 2.0 0.0 1.0
O A:HOH4143 2.0 0.0 1.0
O A:HOH3875 2.0 0.0 1.0
O A:HOH4158 2.0 0.0 1.0
O A:HOH3801 2.7 0.0 1.0
O A:HOH3550 3.1 0.0 1.0
O A:HOH3909 3.3 0.0 1.0
O A:HOH3799 4.1 0.0 1.0
O A:HOH3784 4.3 0.0 1.0
O4 A:U578 4.6 0.0 1.0
O6 A:G1254 4.8 0.0 1.0
O4 A:U1253 4.8 0.0 1.0
N6 A:A1255 5.0 0.0 1.0

Magnesium binding site 7 out of 159 in 7m4v

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Magnesium binding site 7 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3209

b:0.0
occ:1.00
O A:HOH3816 1.8 0.0 1.0
O A:HOH3697 2.2 0.0 1.0
O A:HOH3757 2.5 0.0 1.0
O A:HOH3802 2.6 0.0 1.0
O R:HOH202 2.6 0.0 1.0
O6 A:G1259 2.6 0.0 1.0
C6 A:G1259 3.8 0.0 1.0
O A:HOH4116 3.8 0.0 1.0
O A:HOH3606 4.2 0.0 1.0
OP2 A:A2010 4.2 0.0 1.0
N1 A:G1259 4.3 0.0 1.0
O4 A:U1258 4.4 0.0 1.0
N1 A:A1260 4.4 0.0 1.0
NH2 R:ARG99 4.7 0.0 1.0
C5 A:U1258 4.9 0.0 1.0
C4 A:U1258 5.0 0.0 1.0
C5 A:G1259 5.0 0.0 1.0

Magnesium binding site 8 out of 159 in 7m4v

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Magnesium binding site 8 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3210

b:0.0
occ:1.00
O A:HOH3716 2.0 0.0 1.0
O A:HOH3572 2.2 0.0 1.0
O A:HOH3462 2.4 0.0 1.0
O A:HOH4089 2.4 0.0 1.0
O A:HOH3831 2.5 0.0 1.0
O A:HOH4125 2.6 0.0 1.0
O A:HOH3917 3.8 0.0 1.0
O A:HOH3889 4.1 0.0 1.0
O4 A:U2007 4.2 0.0 1.0
O6 A:G2006 4.2 0.0 1.0
N7 A:G2006 4.3 0.0 1.0
O A:HOH3600 4.3 0.0 1.0
OP2 A:U1262 4.3 0.0 1.0
O A:HOH4060 4.4 0.0 1.0
O A:HOH4072 4.5 0.0 1.0
N6 A:A2005 4.6 0.0 1.0
N7 A:A2005 4.6 0.0 1.0
C6 A:G2006 5.0 0.0 1.0

Magnesium binding site 9 out of 159 in 7m4v

Go back to Magnesium Binding Sites List in 7m4v
Magnesium binding site 9 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3211

b:0.0
occ:1.00
O A:HOH4144 2.0 0.0 1.0
O A:HOH3729 2.0 0.0 1.0
O A:HOH3862 2.0 0.0 1.0
O A:HOH3471 2.2 0.0 1.0
O A:HOH4067 2.6 0.0 1.0
O A:HOH3610 3.9 0.0 1.0
O A:HOH3623 4.0 0.0 1.0
O A:HOH4091 4.0 0.0 1.0
O A:HOH4108 4.1 0.0 1.0
N7 A:G2045 4.1 0.0 1.0
O6 A:G2045 4.2 0.0 1.0
N7 A:G2044 4.3 0.0 1.0
O A:HOH3454 4.3 0.0 1.0
O6 A:G2044 4.4 0.0 1.0
N4 A:C2043 4.7 0.0 1.0
N4 A:C2046 4.8 0.0 1.0
C4 A:C2043 4.9 0.0 1.0
C6 A:G2045 4.9 0.0 1.0
C5 A:G2045 4.9 0.0 1.0
C5 A:C2043 4.9 0.0 1.0
C5 A:G2044 5.0 0.0 1.0

Magnesium binding site 10 out of 159 in 7m4v

Go back to Magnesium Binding Sites List in 7m4v
Magnesium binding site 10 out of 159 in the A. Baumannii Ribosome-Eravacycline Complex: 50S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of A. Baumannii Ribosome-Eravacycline Complex: 50S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3212

b:0.0
occ:1.00
O A:HOH3804 1.9 0.0 1.0
O A:HOH3690 2.0 0.0 1.0
OP2 A:A1260 2.2 0.0 1.0
O A:HOH3857 2.3 0.0 1.0
O A:HOH3695 2.3 0.0 1.0
OP1 A:U2611 2.4 0.0 1.0
P A:A1260 3.4 0.0 1.0
P A:U2611 3.6 0.0 1.0
OP1 A:A1260 3.7 0.0 1.0
OP2 A:U2611 3.9 0.0 1.0
O2' A:U1262 4.2 0.0 1.0
O A:HOH3823 4.2 0.0 1.0
O3' A:G1259 4.3 0.0 1.0
O5' A:A1260 4.5 0.0 1.0
C5' A:U2611 4.7 0.0 1.0
O5' A:U2611 4.7 0.0 1.0
C5' A:A1260 4.7 0.0 1.0
O3' A:A2610 4.7 0.0 1.0
C3' A:A2610 4.7 0.0 1.0
OP1 A:A2610 4.8 0.0 1.0

Reference:

Z.Zhang, C.E.Morgan, R.A.Bonomo, E.W.Yu. Cryo-Em Determination of Eravacycline-Bound Structures of the Ribosome and the Multidrug Efflux Pump Adej of Acinetobacter Baumannii To Be Published.
Page generated: Mon Jul 12 14:24:48 2021

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