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Magnesium in PDB 6hma: Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit

Magnesium Binding Sites:

Magnesium binding site 1 out of 237 in 6hma

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Magnesium binding site 1 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


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Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3001

b:69.0
occ:1.00
OP2 A:G15 2.1 62.7 1.0
OP2 A:A14 2.2 64.8 1.0
P A:G15 3.6 62.7 1.0
P A:A14 3.7 64.8 1.0
C5' A:A14 4.2 64.8 1.0
O5' A:A14 4.3 64.8 1.0
C5' A:G15 4.3 62.7 1.0
OP1 A:G15 4.3 62.7 1.0
OP1 A:A14 4.4 64.8 1.0
O3' A:A14 4.4 64.8 1.0
O5' A:G15 4.4 62.7 1.0
C3' A:A14 4.6 64.8 1.0
O3' A:A13 4.7 67.8 1.0

Magnesium binding site 2 out of 237 in 6hma

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Magnesium binding site 2 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3002

b:55.1
occ:1.00
O6 A:G520 4.3 65.5 1.0
O6 A:G30 4.4 61.7 1.0
N4 A:C31 4.7 62.5 1.0
O4 A:U29 4.7 59.9 1.0
C5 A:U29 4.8 59.9 1.0
OP2 A:U29 4.8 59.9 1.0
OP2 A:A493 4.9 59.7 1.0
OP2 A:A28 5.0 57.9 1.0

Magnesium binding site 3 out of 237 in 6hma

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Magnesium binding site 3 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3003

b:62.9
occ:1.00
OP1 A:C31 2.6 62.5 1.0
P A:C31 3.9 62.5 1.0
OP1 A:C1277 3.9 68.0 1.0
OP1 A:G1278 4.3 69.5 1.0
OP1 A:C1239 4.3 62.5 1.0
OP1 A:U1238 4.4 62.3 1.0
OP2 A:C31 4.4 62.5 1.0
O3' A:G30 4.4 61.7 1.0
O3' A:C1277 4.7 68.0 1.0
OP2 A:C1239 4.7 62.5 1.0
P A:C1239 4.8 62.5 1.0
O3' A:U1238 5.0 62.3 1.0
P A:G1278 5.0 69.5 1.0

Magnesium binding site 4 out of 237 in 6hma

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Magnesium binding site 4 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3004

b:85.3
occ:1.00
C5' A:G45 3.3 88.6 1.0
C8 A:G218 3.8 85.7 1.0
OP2 A:G218 3.8 85.7 1.0
O2' A:C46 3.8 87.0 1.0
C3' A:G45 4.0 88.6 1.0
O5' A:G45 4.0 88.6 1.0
OP1 A:G45 4.0 88.6 1.0
N7 A:G218 4.1 85.7 1.0
C4' A:G45 4.2 88.6 1.0
C2' A:C46 4.2 87.0 1.0
C2' A:G45 4.3 88.6 1.0
O5' A:G218 4.3 85.7 1.0
P A:G45 4.5 88.6 1.0
C3' A:C46 4.5 87.0 1.0
P A:G218 4.6 85.7 1.0
OP2 A:G45 4.9 88.6 1.0
N9 A:G218 4.9 85.7 1.0

Magnesium binding site 5 out of 237 in 6hma

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Magnesium binding site 5 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3005

b:80.1
occ:1.00
N7 A:G80 4.0 91.1 1.0
O6 A:G82 4.0 90.7 1.0
O6 A:G80 4.4 91.1 1.0
O6 A:G81 4.4 90.6 1.0
N7 A:G81 4.5 90.6 1.0
C5 A:G80 4.8 91.1 1.0
OP1 A:A102 4.8 94.7 1.0
C6 A:G82 4.8 90.7 1.0
C8 A:G80 4.9 91.1 1.0
C6 A:G80 4.9 91.1 1.0

Magnesium binding site 6 out of 237 in 6hma

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Magnesium binding site 6 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3006

b:69.5
occ:1.00
OP2 A:U119 2.1 73.9 1.0
P A:U119 3.5 73.9 1.0
O6 A:G122 4.0 68.4 1.0
O3' A:A118 4.1 68.5 1.0
O6 A:G121 4.3 73.4 1.0
OP1 A:U119 4.3 73.9 1.0
N7 A:G121 4.5 73.4 1.0
O5' A:U119 4.5 73.9 1.0
N7 A:G122 4.7 68.4 1.0
C5' A:U119 4.8 73.9 1.0
OP1 A:G120 4.9 77.5 1.0
C6 A:G122 4.9 68.4 1.0
C6 A:G121 4.9 73.4 1.0

Magnesium binding site 7 out of 237 in 6hma

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Magnesium binding site 7 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3007

b:77.0
occ:1.00
OP2 A:G120 2.1 77.5 1.0
P A:G120 3.4 77.5 1.0
OP2 A:U149 3.6 88.8 1.0
O3' A:U119 3.7 73.9 1.0
OP2 A:A150 4.0 81.1 1.0
O6 A:G51 4.2 73.5 1.0
O2' A:U119 4.3 73.9 1.0
OP1 A:G120 4.3 77.5 1.0
O5' A:G120 4.5 77.5 1.0
P A:U149 4.7 88.8 1.0
C5' A:G120 4.7 77.5 1.0
C3' A:U119 4.9 73.9 1.0
O5' A:U149 5.0 88.8 1.0

Magnesium binding site 8 out of 237 in 6hma

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Magnesium binding site 8 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3008

b:91.3
occ:1.00
OP2 A:A178 1.9 88.4 1.0
OP2 A:G177 2.4 96.0 1.0
P A:A178 3.4 88.4 1.0
P A:G177 3.6 96.0 1.0
O3' A:A176 3.7 0.2 1.0
OP1 A:A178 4.2 88.4 1.0
O3' A:G177 4.3 96.0 1.0
O5' A:A178 4.3 88.4 1.0
C3' A:G177 4.3 96.0 1.0
N1 A:A179 4.4 81.7 1.0
O2' A:A176 4.5 0.2 1.0
O5' A:G177 4.6 96.0 1.0
O2' A:A49 4.7 75.4 1.0
OP1 A:G177 4.7 96.0 1.0
C3' A:A176 4.8 0.2 1.0
C2' A:A49 4.9 75.4 1.0
N6 A:A179 4.9 81.7 1.0

Magnesium binding site 9 out of 237 in 6hma

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Magnesium binding site 9 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3009

b:78.5
occ:1.00
N7 A:G180 4.0 76.6 1.0
O6 A:G181 4.1 78.5 1.0
OP1 A:A179 4.3 81.7 1.0
OP2 A:A216 4.4 84.5 1.0
O6 A:G180 4.6 76.6 1.0
OP2 A:G215 4.7 80.5 1.0
N7 A:G181 4.8 78.5 1.0
C8 A:G180 4.9 76.6 1.0
C5 A:G180 4.9 76.6 1.0
OP1 A:G215 4.9 80.5 1.0

Magnesium binding site 10 out of 237 in 6hma

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Magnesium binding site 10 out of 237 in the Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3010

b:66.8
occ:1.00
OP2 A:A191 3.9 69.1 1.0
O6 A:G192 4.4 64.3 1.0
OP2 A:G190 4.4 71.8 1.0
N7 A:G192 4.6 64.3 1.0
N7 A:A191 4.6 69.1 1.0
N7 A:G208 4.6 62.4 1.0
C8 A:A191 5.0 69.1 1.0

Reference:

Z.Eyal, G.Cimicata. Improved Model Derived From Cryo-Em Map of Staphylococcus Aureus Large Ribosomal Subunit To Be Published.
Page generated: Tue Oct 1 01:48:12 2024

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