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Magnesium in PDB 5gae: Rnc in Complex with A Translocating Secyeg

Other elements in 5gae:

The structure of Rnc in Complex with A Translocating Secyeg also contains other interesting chemical elements:

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 - 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 - 230; Page 24, Binding sites: 231 - 240; Page 25, Binding sites: 241 - 250; Page 26, Binding sites: 251 - 260; Page 27, Binding sites: 261 - 270; Page 28, Binding sites: 271 - 280; Page 29, Binding sites: 281 - 290; Page 30, Binding sites: 291 - 300; Page 31, Binding sites: 301 - 310; Page 32, Binding sites: 311 - 320; Page 33, Binding sites: 321 - 323;

Binding sites:

The binding sites of Magnesium atom in the Rnc in Complex with A Translocating Secyeg (pdb code 5gae). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 323 binding sites of Magnesium where determined in the Rnc in Complex with A Translocating Secyeg, PDB code: 5gae:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 323 in 5gae

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Magnesium binding site 1 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3001

b:10.7
occ:1.00
OP2 A:A447 4.1 42.5 1.0
O6 A:G474 4.2 42.7 1.0
O6 A:G473 4.4 42.4 1.0
O6 A:G30 4.5 34.4 1.0
N4 A:C31 4.5 45.5 1.0
OP2 A:A28 4.6 28.7 1.0
O4 A:U29 4.6 23.3 1.0
OP2 A:U29 4.6 33.5 1.0
C5 A:U29 4.7 23.8 1.0
O5' A:A447 4.9 29.9 1.0
C4 A:U29 5.0 22.2 1.0

Magnesium binding site 2 out of 323 in 5gae

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Magnesium binding site 2 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3002

b:28.1
occ:1.00
OP2 A:U120 2.1 43.3 1.0
P A:U120 3.5 49.7 1.0
N7 A:G122 3.9 49.4 1.0
OP1 A:U120 4.3 41.6 1.0
O3' A:A119 4.3 46.5 1.0
OP1 A:G121 4.4 43.1 1.0
OP2 A:G122 4.4 49.2 1.0
O5' A:U120 4.5 45.5 1.0
O6 A:G122 4.5 46.9 1.0
C5' A:U120 4.5 51.7 1.0
N7 A:G121 4.6 52.5 1.0
C8 A:G122 4.9 49.8 1.0
C3' A:U120 4.9 37.2 1.0
C8 A:G121 4.9 54.5 1.0
C5 A:G122 4.9 45.2 1.0
C5 A:G121 4.9 55.0 1.0

Magnesium binding site 3 out of 323 in 5gae

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Magnesium binding site 3 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3003

b:20.2
occ:1.00
OP1 A:U120 2.1 41.6 1.0
P A:U120 3.4 49.7 1.0
OP2 A:U120 4.1 43.3 1.0
O6 A:G124 4.1 40.2 1.0
O5' A:U120 4.2 45.5 1.0
N7 A:G123 4.2 45.4 1.0
OP2 A:G123 4.3 47.8 1.0
C5' A:U120 4.4 51.7 1.0
OP2 A:G122 4.5 49.2 1.0
O3' A:A119 4.6 46.5 1.0
C8 A:G123 4.6 43.8 1.0
C3' A:A119 4.8 43.1 1.0
N7 A:G124 4.9 41.9 1.0

Magnesium binding site 4 out of 323 in 5gae

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Magnesium binding site 4 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3004

b:61.1
occ:1.00
OP2 A:A218 2.7 58.7 1.0
O6 A:G220 3.9 65.6 1.0
P A:A218 4.0 59.6 1.0
N6 A:A219 4.2 57.7 1.0
OP2 A:U427 4.3 71.6 1.0
OP1 A:A428 4.4 67.7 1.0
OP1 A:U427 4.4 81.3 1.0
N7 A:A219 4.5 52.5 1.0
O5' A:A218 4.5 55.5 1.0
N7 A:A218 4.6 53.9 1.0
OP1 A:A218 4.6 64.2 1.0
P A:U427 4.7 77.7 1.0
O5' A:A217 4.8 63.2 1.0
C8 A:A218 4.8 58.4 1.0
O5' A:U427 4.9 68.8 1.0

Magnesium binding site 5 out of 323 in 5gae

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Magnesium binding site 5 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3005

b:36.9
occ:1.00
OP1 A:U419 2.2 56.8 1.0
P A:U419 3.5 58.6 1.0
O3' A:C418 3.9 60.2 1.0
C5' A:U419 4.0 55.2 1.0
N7 A:G230 4.1 65.8 1.0
O5' A:U419 4.2 55.3 1.0
C8 A:G230 4.6 72.4 1.0
OP2 A:U419 4.7 60.3 1.0

Magnesium binding site 6 out of 323 in 5gae

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Magnesium binding site 6 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3006

b:17.4
occ:1.00
OP2 A:G450 2.3 28.0 1.0
OP2 A:G452 3.5 36.5 1.0
O E:GLY81 3.7 33.4 1.0
P A:G450 3.8 26.0 1.0
O E:SER80 4.0 30.1 1.0
OP2 A:U451 4.3 36.1 1.0
C E:SER80 4.4 30.9 1.0
O5' A:G450 4.5 23.6 1.0
OP1 A:A449 4.6 28.2 1.0
OP1 A:G450 4.6 29.0 1.0
CA E:SER80 4.7 35.2 1.0
O3' A:A449 4.8 25.4 1.0
C E:GLY81 4.8 30.9 1.0
P A:G452 4.9 41.3 1.0
OP2 A:A449 5.0 30.3 1.0

Magnesium binding site 7 out of 323 in 5gae

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Magnesium binding site 7 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3007

b:12.4
occ:1.00
O6 A:G450 2.3 20.9 1.0
OP1 A:A453 2.5 22.6 1.0
C6 A:G450 3.4 18.8 1.0
N7 A:A449 3.7 22.6 1.0
N7 A:G450 3.9 22.1 1.0
P A:A453 3.9 21.8 1.0
C5 A:G450 4.0 19.0 1.0
OP2 A:A449 4.2 30.3 1.0
MG A:MG3241 4.2 29.4 1.0
C5' A:U448 4.3 32.7 1.0
OP2 A:A453 4.5 30.1 1.0
C8 A:A449 4.5 24.0 1.0
N6 A:A449 4.6 25.5 1.0
N1 A:G450 4.6 19.1 1.0
O5' A:A453 4.6 26.2 1.0
C5 A:A449 4.7 19.4 1.0
OP1 A:A454 4.8 31.7 1.0
C5' A:A453 4.9 26.4 1.0
O3' A:G452 5.0 29.0 1.0

Magnesium binding site 8 out of 323 in 5gae

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Magnesium binding site 8 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3008

b:26.1
occ:1.00
OP1 A:C527 2.1 33.7 1.0
OP1 A:A526 2.4 31.9 1.0
P A:C527 3.4 28.0 1.0
P A:A526 3.7 31.2 1.0
OP2 A:C527 3.9 30.2 1.0
O5' A:C527 4.1 27.5 1.0
OP1 A:A528 4.2 37.5 1.0
O5' A:A526 4.3 30.8 1.0
OP2 A:A526 4.3 30.2 1.0
C5' A:C527 4.6 27.7 1.0
O3' A:A526 4.6 25.1 1.0
C3' A:C527 4.7 34.5 1.0
C5' A:A526 4.9 25.9 1.0
C3' A:A526 4.9 23.3 1.0
O3' A:U525 4.9 31.8 1.0

Magnesium binding site 9 out of 323 in 5gae

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Magnesium binding site 9 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3009

b:22.4
occ:1.00
OP1 A:A1008 3.6 36.8 1.0
OP1 A:G559 4.3 44.5 1.0
OP2 A:C560 4.3 37.1 1.0
OP1 A:G2038 4.4 27.5 1.0
OP1 A:C560 4.5 45.3 1.0
P A:C560 4.9 48.2 1.0
P A:A1008 4.9 38.5 1.0

Magnesium binding site 10 out of 323 in 5gae

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Magnesium binding site 10 out of 323 in the Rnc in Complex with A Translocating Secyeg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Rnc in Complex with A Translocating Secyeg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3010

b:10.7
occ:1.00
OP1 A:U567 2.2 21.4 1.0
P A:U567 3.4 21.4 1.0
O3' A:U566 3.6 24.6 1.0
O4 A:U810 4.1 21.0 1.0
OP2 A:G809 4.2 21.2 1.0
N7 A:G809 4.2 16.7 1.0
OP2 A:G808 4.3 28.4 1.0
OP2 A:U567 4.5 23.3 1.0
O5' A:U567 4.5 21.2 1.0
C5' A:U567 4.5 22.8 1.0
C8 A:G809 4.9 14.3 1.0
C3' A:U566 4.9 21.3 1.0
ND1 M:HIS35 4.9 36.1 1.0
C4 A:U810 5.0 18.5 1.0

Reference:

A.Jomaa, D.Boehringer, M.Leibundgut, N.Ban. Structures of the E. Coli Translating Ribosome with Srp and Its Receptor and with the Translocon. Nat Commun V. 7 10471 2016.
ISSN: ESSN 2041-1723
PubMed: 26804923
DOI: 10.1038/NCOMMS10471
Page generated: Mon Dec 14 20:20:49 2020

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