Magnesium in PDB 5gad: Rnc-Srp-Sr Complex Early State

The structure of Rnc-Srp-Sr Complex Early State 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; 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 - 330; Page 34, Binding sites: 331 - 340; Page 35, Binding sites: 341 - 350; Page 36, Binding sites: 351 - 360; Page 37, Binding sites: 361 - 370; Page 38, Binding sites: 371 - 380; Page 39, Binding sites: 381 - 390; Page 40, Binding sites: 391 - 400; Page 41, Binding sites: 401 - 410; Page 42, Binding sites: 411 - 420; Page 43, Binding sites: 421 - 430; Page 44, Binding sites: 431 - 433;

Binding sites:

The binding sites of Magnesium atom in the Rnc-Srp-Sr Complex Early State (pdb code 5gad). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 433 binding sites of Magnesium where determined in the Rnc-Srp-Sr Complex Early State, PDB code: 5gad:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg101 b:60.0 occ:1.00 OP1 A:A2602 2.7 60.0 1.0 OP1 2:C75 3.0 60.0 1.0 OP1 2:A76 3.0 60.0 1.0 P 2:A76 3.9 60.0 1.0 OP2 2:A76 4.0 60.0 1.0 OP1 A:C2601 4.0 60.0 1.0 N1 A:A2439 4.1 60.0 1.0 P A:A2602 4.1 60.0 1.0 OP2 A:U2585 4.2 60.0 1.0 O5' A:A2602 4.4 60.0 1.0 P 2:C75 4.5 60.0 1.0 OP1 A:U2585 4.5 60.0 1.0 O5' 2:A76 4.6 60.0 1.0 P A:C2601 4.8 60.0 1.0 C2 A:A2439 4.8 60.0 1.0 N6 A:A2439 4.8 60.0 1.0 O5' A:C2601 4.8 60.0 1.0 C5' 2:C75 4.8 60.0 1.0 O3' A:C2601 4.9 60.0 1.0 P A:U2585 4.9 60.0 1.0 C6 A:A2439 4.9 60.0 1.0

Magnesium binding site 2 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3001 b:60.0 occ:1.00 OP2 A:A447 3.8 60.0 1.0 O6 A:G473 4.4 60.0 1.0 O6 A:G474 4.5 60.0 1.0 O4 A:U29 4.5 60.0 1.0 C5 A:U29 4.5 60.0 1.0 OP2 A:A28 4.6 60.0 1.0 N4 A:C31 4.6 60.0 1.0 OP2 A:U29 4.6 60.0 1.0 O5' A:A447 4.6 60.0 1.0 O6 A:G30 4.8 60.0 1.0 C4 A:U29 4.8 60.0 1.0 P A:A447 4.8 60.0 1.0 C2' A:A447 5.0 60.0 1.0

Magnesium binding site 3 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3002 b:60.0 occ:1.00 OP2 A:U120 1.9 60.0 1.0 P A:U120 3.3 60.0 1.0 OP1 A:U120 3.9 60.0 1.0 O3' A:A119 4.2 60.0 1.0 N7 A:G122 4.2 60.0 1.0 O5' A:U120 4.2 60.0 1.0 C5' A:U120 4.3 60.0 1.0 O6 A:G123 4.3 60.0 1.0 O6 A:G122 4.4 60.0 1.0 N7 A:G121 4.8 60.0 1.0 C5 A:G122 5.0 60.0 1.0

Magnesium binding site 4 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3003 b:60.0 occ:1.00 OP1 A:U120 2.2 60.0 1.0 P A:U120 3.6 60.0 1.0 OP2 A:G123 3.7 60.0 1.0 N7 A:G123 3.9 60.0 1.0 O6 A:G124 4.0 60.0 1.0 O5' A:U120 4.2 60.0 1.0 C8 A:G123 4.4 60.0 1.0 OP2 A:U120 4.4 60.0 1.0 N7 A:G124 4.5 60.0 1.0 OP2 A:G122 4.5 60.0 1.0 C5' A:U120 4.6 60.0 1.0 NH1 d:ARG19 4.7 60.0 1.0 O3' A:A119 4.7 60.0 1.0 C6 A:G124 4.9 60.0 1.0 C3' A:A119 4.9 60.0 1.0 P A:G123 5.0 60.0 1.0

Magnesium binding site 5 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3004 b:60.0 occ:1.00 OP2 A:A218 2.4 60.0 1.0 N6 A:A219 3.5 60.0 1.0 OP1 A:A428 3.7 60.0 1.0 O5' A:A217 3.8 60.0 1.0 P A:A218 3.9 60.0 1.0 N7 A:A218 3.9 60.0 1.0 O6 A:G220 4.1 60.0 1.0 OP2 A:A217 4.1 60.0 1.0 C8 A:A218 4.3 60.0 1.0 P A:A217 4.3 60.0 1.0 O5' A:A218 4.4 60.0 1.0 N7 A:A219 4.4 60.0 1.0 OP1 A:A217 4.4 60.0 1.0 C3' A:A217 4.6 60.0 1.0 C6 A:A219 4.6 60.0 1.0 C5' A:A217 4.6 60.0 1.0 OP1 A:U427 4.7 60.0 1.0 O3' A:A217 4.7 60.0 1.0 P A:A428 4.9 60.0 1.0 C5 A:A219 4.9 60.0 1.0 OP1 A:A218 4.9 60.0 1.0

Magnesium binding site 6 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3005 b:60.0 occ:1.00 OP1 A:U419 2.1 60.0 1.0 P A:U419 3.6 60.0 1.0 C5' A:U419 4.1 60.0 1.0 O3' A:C418 4.3 60.0 1.0 O5' A:U419 4.3 60.0 1.0 N7 A:G230 4.4 60.0 1.0 OP2 A:U419 4.5 60.0 1.0 C8 A:G230 5.0 60.0 1.0

Magnesium binding site 7 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3006 b:60.0 occ:1.00 OP2 A:G450 2.1 60.0 1.0 O E:SER80 3.5 60.0 1.0 OP2 A:G452 3.6 60.0 1.0 P A:G450 3.6 60.0 1.0 O E:GLY81 3.8 60.0 1.0 C E:SER80 4.2 60.0 1.0 O5' A:G450 4.4 60.0 1.0 OP1 A:A449 4.4 60.0 1.0 OP1 A:G450 4.4 60.0 1.0 CA E:SER80 4.4 60.0 1.0 O3' A:A449 4.6 60.0 1.0 OP2 A:U451 4.6 60.0 1.0 O5' A:A449 4.7 60.0 1.0 OP2 A:A449 4.8 60.0 1.0 P A:A449 4.8 60.0 1.0 C E:GLY81 4.8 60.0 1.0 P A:G452 5.0 60.0 1.0

Magnesium binding site 8 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3007 b:60.0 occ:1.00 OP1 A:A453 2.1 60.0 1.0 O6 A:G450 2.3 60.0 1.0 C6 A:G450 3.4 60.0 1.0 P A:A453 3.5 60.0 1.0 MG A:MG3225 3.6 60.0 1.0 N7 A:G450 4.1 60.0 1.0 C5 A:G450 4.1 60.0 1.0 OP2 A:A449 4.3 60.0 1.0 C5' A:A453 4.3 60.0 1.0 OP2 A:A453 4.3 60.0 1.0 OP1 A:A454 4.3 60.0 1.0 O5' A:A453 4.3 60.0 1.0 O3' A:G452 4.5 60.0 1.0 N1 A:G450 4.6 60.0 1.0 N7 A:A449 4.7 60.0 1.0 OP1 A:A471 4.9 60.0 1.0 C5' A:U448 5.0 60.0 1.0

Magnesium binding site 9 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3008 b:60.0 occ:1.00 OP1 A:C527 2.5 60.0 1.0 OP1 A:A526 2.7 60.0 1.0 OP1 A:A528 3.2 60.0 1.0 P A:C527 3.7 60.0 1.0 O5' A:C527 4.0 60.0 1.0 C3' A:C527 4.2 60.0 1.0 P A:A526 4.2 60.0 1.0 C5' A:C527 4.3 60.0 1.0 OP2 A:C527 4.3 60.0 1.0 P A:A528 4.6 60.0 1.0 C4' A:C527 4.7 60.0 1.0 O5' A:A526 4.8 60.0 1.0 O3' A:C527 4.9 60.0 1.0 O3' A:A526 5.0 60.0 1.0

Magnesium binding site 10 out of 433 in the Rnc-Srp-Sr Complex Early State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Rnc-Srp-Sr Complex Early State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg3009 b:60.0 occ:1.00 OP1 A:C560 3.3 60.0 1.0 OP1 A:A1008 3.9 60.0 1.0 N7 A:A1008 3.9 60.0 1.0 OP1 A:G2038 4.0 60.0 1.0 C8 A:A1008 4.3 60.0 1.0 P A:C560 4.5 60.0 1.0 OP2 A:C560 4.8 60.0 1.0

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