Magnesium in PDB 8g6x: Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe

Other elements in 8g6x:

The structure of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe also contains other interesting chemical elements:

Zinc (Zn) 2 atoms
Potassium (K) 7 atoms

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 - 160; Page 17, Binding sites: 161 - 170; Page 18, Binding sites: 171 - 180; Page 19, Binding sites: 181 - 190; Page 20, Binding sites: 191 - 200; Page 21, Binding sites: 201 - 210; Page 22, Binding sites: 211 - 220; Page 23, Binding sites: 221 - 223;

Binding sites:

The binding sites of Magnesium atom in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe (pdb code 8g6x). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 223 binding sites of Magnesium where determined in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe, PDB code: 8g6x:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 223 in 8g6x

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Magnesium binding site 1 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6001

b:8.4
occ:1.00
 O a:HOH7589 2.0 8.4 1.0
O a:HOH6579 2.0 6.6 1.0
O a:HOH8642 2.3 4.4 1.0
O a:HOH7429 2.3 8.4 1.0
O a:HOH8011 2.5 6.4 1.0
O a:HOH9013 4.0 6.0 1.0
O6 a:G473 4.1 8.4 1.0
O6 a:G474 4.1 8.4 1.0
O a:HOH8821 4.1 8.4 1.0
O a:HOH6812 4.1 8.4 1.0
OP2 a:A28 4.3 8.4 1.0
OP2 a:A447 4.4 8.4 1.0
O2' a:A447 4.5 8.4 1.0
O4 a:U29 4.6 8.4 1.0
C2' a:A447 4.6 8.4 1.0
O6 a:G30 4.6 8.4 1.0
OP2 a:U29 4.8 8.4 1.0
N4 a:C31 4.9 8.4 1.0
C5 a:U29 4.9 8.4 1.0
O5' a:A447 4.9 8.4 1.0
C6 a:G473 4.9 8.4 1.0
C3' a:A447 5.0 8.4 1.0

Magnesium binding site 2 out of 223 in 8g6x

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Magnesium binding site 2 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6002

b:12.1
occ:1.00
 O a:HOH6670 1.8 8.4 1.0
O a:HOH7138 1.9 8.4 1.0
O a:HOH6525 2.0 4.7 1.0
OP2 a:U120 2.0 8.4 1.0
O a:HOH6871 2.4 8.4 1.0
O a:HOH7970 2.8 6.5 1.0
P a:U120 3.5 8.4 1.0
O a:HOH9054 3.7 4.8 1.0
OP1 a:G121 3.9 8.4 1.0
N7 a:G122 4.2 8.4 1.0
N7 a:G121 4.2 8.4 1.0
O3' a:A119 4.3 8.4 1.0
OP1 a:U120 4.3 8.4 1.0
C5' a:U120 4.3 8.4 1.0
O5' a:U120 4.3 8.4 1.0
OP2 a:G122 4.4 8.4 1.0
O6 a:G122 4.5 8.4 1.0
C3' a:U120 4.5 8.4 1.0
C8 a:G121 4.6 8.4 1.0
C5 a:G121 4.6 8.4 1.0
O a:HOH8432 4.7 8.4 1.0
O5' a:G121 4.7 8.4 1.0
P a:G121 4.8 8.4 1.0
C4' a:U120 4.9 8.4 1.0
O6 a:G123 4.9 8.4 1.0

Magnesium binding site 3 out of 223 in 8g6x

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Magnesium binding site 3 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6003

b:8.4
occ:1.00
 OP1 a:U120 1.9 8.4 1.0
O a:HOH7998 1.9 8.0 1.0
O a:HOH6827 1.9 8.4 1.0
O a:HOH9030 2.4 8.4 1.0
O a:HOH8432 2.5 8.4 1.0
O a:HOH6406 2.6 10.2 1.0
P a:U120 3.3 8.4 1.0
O a:HOH7970 3.7 6.5 1.0
O a:HOH6506 3.9 8.4 1.0
O6 a:G124 3.9 8.4 1.0
O5' a:U120 4.0 8.4 1.0
OP2 a:U120 4.1 8.4 1.0
OP2 a:G123 4.2 8.4 1.0
O a:HOH9127 4.3 4.5 1.0
O3' a:A119 4.3 8.4 1.0
C3' a:A119 4.4 8.4 1.0
C5' a:U120 4.4 8.4 1.0
N7 a:G123 4.6 8.4 1.0
O a:HOH6473 4.8 8.4 1.0
N7 a:G124 4.8 8.4 1.0
C4' a:A119 4.8 8.4 1.0
C5' a:A119 4.9 8.4 1.0
OP2 a:G122 4.9 8.4 1.0
C6 a:G124 4.9 8.4 1.0

Magnesium binding site 4 out of 223 in 8g6x

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Magnesium binding site 4 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6004

b:19.3
occ:1.00
 O a:HOH6425 2.1 4.7 1.0
O6 a:G220 2.5 8.4 1.0
O a:HOH8063 3.2 5.8 1.0
OP1 a:A428 3.2 3.2 1.0
O5' a:U427 3.3 8.4 1.0
O a:HOH7360 3.4 7.0 1.0
OP2 a:U427 3.4 8.4 1.0
N6 a:A219 3.6 8.4 1.0
OP2 a:A428 3.6 3.2 1.0
C6 a:G220 3.7 8.4 1.0
P a:U427 3.7 8.4 1.0
O a:HOH7309 3.7 6.2 1.0
P a:A428 3.8 3.2 1.0
OP1 a:U427 3.9 8.4 1.0
C3' a:U427 4.1 8.4 1.0
O3' a:U427 4.2 8.4 1.0
N1 a:G220 4.3 8.4 1.0
C5' a:U427 4.3 8.4 1.0
OP2 a:A218 4.5 8.4 1.0
C6 a:A219 4.6 8.4 1.0
O a:HOH9096 4.8 10.7 1.0
N7 a:A219 4.8 8.4 1.0
C4' a:U427 4.8 8.4 1.0
C5 a:G220 4.8 8.4 1.0

Magnesium binding site 5 out of 223 in 8g6x

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Magnesium binding site 5 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6005

b:5.5
occ:1.00
 O a:HOH6968 2.1 4.8 1.0
O a:HOH8801 2.4 4.6 1.0
OP1 a:U419 2.7 8.4 1.0
N7 a:G230 3.4 15.4 1.0
C5' a:U419 4.0 8.4 1.0
C8 a:G230 4.0 15.4 1.0
P a:U419 4.0 8.4 1.0
O5' a:U419 4.4 8.4 1.0
O a:HOH8283 4.5 8.0 1.0
C5 a:G230 4.5 15.4 1.0
O3' a:C418 4.6 8.4 1.0
O6 a:G230 4.8 15.4 1.0

Magnesium binding site 6 out of 223 in 8g6x

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Magnesium binding site 6 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6006

b:8.4
occ:1.00
 OP2 a:G450 1.9 8.4 1.0
O a:HOH7201 2.0 6.2 1.0
O a:HOH8386 2.3 8.4 1.0
O a:HOH8487 2.3 5.0 1.0
O e:HOH415 2.4 8.4 1.0
O a:HOH6706 2.5 5.2 1.0
P a:G450 3.3 8.4 1.0
O a:HOH6760 3.8 8.4 1.0
O5' a:G450 3.9 8.4 1.0
O a:HOH6475 3.9 8.4 1.0
O e:GLY81 3.9 8.4 1.0
OP2 a:G452 3.9 8.4 1.0
OP1 a:G450 4.0 8.4 1.0
OP2 a:U451 4.1 8.4 1.0
O3' a:A449 4.4 8.4 1.0
OP1 a:A449 4.4 8.4 1.0
O e:SER80 4.6 8.4 1.0
C e:SER80 4.7 8.4 1.0
OP2 a:A449 4.8 8.4 1.0
C3' a:A449 4.8 8.4 1.0
CA e:SER80 4.8 8.4 1.0
O5' a:A449 4.8 8.4 1.0
P a:A449 4.9 8.4 1.0
O a:HOH7468 5.0 8.4 1.0

Magnesium binding site 7 out of 223 in 8g6x

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Magnesium binding site 7 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6007

b:8.4
occ:1.00
 OP1 a:A453 1.9 8.4 1.0
O a:HOH7712 1.9 8.4 1.0
O6 a:G450 2.1 8.4 1.0
O a:HOH8914 2.2 8.4 1.0
O a:HOH7906 2.4 8.4 1.0
O a:HOH7468 2.7 8.4 1.0
P a:A453 3.3 8.4 1.0
C6 a:G450 3.3 8.4 1.0
O5' a:A453 3.7 8.4 1.0
O a:HOH8286 3.8 6.7 1.0
O a:HOH8675 3.9 5.3 1.0
C5' a:A453 4.0 8.4 1.0
O a:HOH8036 4.0 8.4 1.0
C5 a:G450 4.1 8.4 1.0
N7 a:G450 4.2 8.4 1.0
OP2 a:A453 4.2 8.4 1.0
OP1 a:A454 4.2 8.4 1.0
O a:HOH6436 4.3 8.4 1.0
O3' a:G452 4.3 8.4 1.0
N1 a:G450 4.4 8.4 1.0
O a:HOH6515 4.4 7.0 1.0
O a:HOH6536 4.5 8.4 1.0
N7 a:A449 4.6 8.4 1.0
O a:HOH6760 4.6 8.4 1.0
N6 a:A449 4.8 8.4 1.0
OP2 a:A449 4.9 8.4 1.0
P a:A454 5.0 8.4 1.0

Magnesium binding site 8 out of 223 in 8g6x

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Magnesium binding site 8 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6008

b:8.4
occ:1.00
 OP1 a:C527 1.8 8.4 1.0
OP1 a:A526 1.9 8.4 1.0
O a:HOH8081 2.1 8.4 1.0
O a:HOH8149 2.3 4.7 1.0
O a:HOH9133 2.6 8.7 1.0
P a:A526 3.3 8.4 1.0
P a:C527 3.3 8.4 1.0
O5' a:A526 3.8 8.4 1.0
O5' a:C527 4.0 8.4 1.0
OP1 a:A528 4.0 8.4 1.0
C5' a:A526 4.1 8.4 1.0
OP2 a:C527 4.1 8.4 1.0
C5' a:C527 4.2 8.4 1.0
OP2 a:A526 4.2 8.4 1.0
O3' a:A526 4.3 8.4 1.0
O3' a:U525 4.3 8.4 1.0
C3' a:A526 4.5 8.4 1.0
C3' a:C527 4.6 8.4 1.0
C4' a:A526 4.9 8.4 1.0
C4' a:C527 4.9 8.4 1.0

Magnesium binding site 9 out of 223 in 8g6x

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Magnesium binding site 9 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6009

b:8.4
occ:1.00
 OP1 a:U567 1.9 8.4 1.0
O a:HOH8959 2.0 8.4 1.0
O a:HOH8575 2.2 8.4 1.0
O a:HOH6438 2.2 8.4 1.0
O a:HOH8148 2.3 8.4 1.0
O a:HOH7447 2.3 8.4 1.0
P a:U567 3.2 8.4 1.0
O3' a:U566 3.5 8.4 1.0
O a:HOH8954 4.0 8.4 1.0
O a:HOH8220 4.1 8.4 1.0
O5' a:U567 4.1 8.4 1.0
C5' a:U567 4.2 8.4 1.0
O4 a:U810 4.2 8.4 1.0
OP2 a:G809 4.2 8.4 1.0
OP2 a:U567 4.3 8.4 1.0
OP2 a:G808 4.3 8.4 1.0
O a:HOH8866 4.4 8.4 1.0
N7 a:G809 4.4 8.4 1.0
O k:HOH205 4.6 8.4 1.0
ND1 k:HIS35 4.8 8.4 1.0
C3' a:U566 4.9 8.4 1.0
C8 a:G809 4.9 8.4 1.0
O a:HOH8696 5.0 8.4 1.0

Magnesium binding site 10 out of 223 in 8g6x

Go back to Magnesium Binding Sites List in 8g6x
Magnesium binding site 10 out of 223 in the Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh- Trnaphe within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Mg6010

b:8.4
occ:1.00
 O a:HOH6885 2.0 8.4 1.0
O a:HOH9014 2.1 5.6 1.0
O a:HOH6664 2.2 8.4 1.0
O k:HOH228 2.3 8.4 1.0
O a:HOH7044 2.4 8.4 1.0
O a:HOH7749 2.6 8.4 1.0
O a:HOH7823 3.6 8.4 1.0
N7 a:A945 3.7 8.4 1.0
O a:HOH8495 3.8 8.4 1.0
C8 a:A945 3.8 8.4 1.0
OP1 a:C944 3.9 8.4 1.0
O a:HOH6875 4.1 8.4 1.0
O a:HOH6561 4.2 8.4 1.0
OP1 a:G831 4.2 8.4 1.0
OP2 a:C944 4.3 8.4 1.0
N1 a:A2448 4.5 0.0 1.0
OP1 a:U568 4.5 8.4 1.0
P a:C944 4.7 8.4 1.0
N6 a:A2448 4.7 0.0 1.0

Reference:

C.Majumdar, J.H.D.Cate. Structure of Wt E.Coli Ribosome 50S Subunit with Complexed with Mrna, P-Site Fmet-Nh-Trnafmet and A-Site Meta-Aminobenzoic Acid Charged Nh-Trnaphe To Be Published.
Page generated: Fri Oct 4 03:01:52 2024

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