Magnesium in PDB 8t5o: Cryo-Em Structure of Rna Device 43, Holo State

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>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Rna Device 43, Holo State (pdb code 8t5o). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 15 binding sites of Magnesium where determined in the Cryo-Em Structure of Rna Device 43, Holo State, PDB code: 8t5o:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:49.9 occ:1.00 O12 A:TAC301 1.8 47.9 1.0 O11 A:TAC301 1.9 54.9 1.0 OP2 A:G66 2.0 40.8 1.0 C11 A:TAC301 2.9 50.7 1.0 C12 A:TAC301 3.0 45.4 1.0 P A:G66 3.4 38.0 1.0 C1B A:TAC301 3.4 41.3 1.0 O10 A:TAC301 3.7 39.3 1.0 HOC A:TAC301 4.0 49.1 1.0 OP1 A:G66 4.0 41.1 1.0 H3' A:C65 4.0 55.4 1.0 C1A A:TAC301 4.2 46.0 1.0 O5' A:G66 4.2 43.8 1.0 C1C A:TAC301 4.3 43.7 1.0 H2 A:A59 4.3 51.0 1.0 H62 A:A67 4.4 45.1 1.0 O1C A:TAC301 4.4 54.1 1.0 O3' A:C65 4.4 41.9 1.0 C10 A:TAC301 4.5 39.3 1.0 N1 A:A59 4.6 40.5 1.0 H3 A:U63 4.6 75.0 1.0 C3' A:C65 4.7 44.7 1.0 N7 A:A67 4.7 35.4 1.0 O1 A:TAC301 4.7 55.9 1.0 C2 A:A59 4.9 38.5 1.0 O2 A:U63 4.9 82.8 1.0 N6 A:A67 4.9 48.7 1.0 C51 A:TAC301 4.9 38.7 1.0 C1 A:TAC301 5.0 46.1 1.0 H22 A:G60 5.0 60.0 1.0

Magnesium binding site 2 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg303 b:27.9 occ:1.00 O A:HOH402 1.8 45.8 1.0 OP1 A:A53 1.9 52.8 1.0 OP2 A:A53 2.1 37.2 1.0 P A:A53 2.1 42.6 1.0 MG A:MG312 2.4 53.3 1.0 O5' A:A53 2.7 43.5 1.0 OP2 A:G54 3.0 53.2 1.0 H8 A:A53 3.4 44.1 1.0 O A:HOH401 3.5 30.4 1.0 H3' A:A53 3.6 43.2 1.0 O3' A:G52 3.7 36.4 1.0 H5'' A:A53 3.7 42.1 1.0 C5' A:A53 3.8 34.8 1.0 MG A:MG310 4.0 62.5 1.0 H22 A:G66 4.1 39.5 1.0 H3' A:G52 4.3 45.0 1.0 C8 A:A53 4.3 44.2 1.0 P A:G54 4.3 33.7 1.0 C3' A:A53 4.4 39.0 1.0 H5' A:A53 4.5 42.2 1.0 C3' A:G52 4.6 38.1 1.0 C4' A:A53 4.6 25.3 1.0 N7 A:A53 4.9 46.8 1.0 O3' A:A53 4.9 56.1 1.0 N2 A:G66 4.9 35.7 1.0 OP1 A:G54 5.0 38.9 1.0

Magnesium binding site 3 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg304 b:9.6 occ:1.00 H4' A:A53 3.6 42.5 1.0 HO2' A:A53 3.9 44.9 1.0 OP2 A:A67 4.0 37.5 1.0 OP1 A:A67 4.1 39.0 1.0 N7 A:G55 4.1 51.3 1.0 H4' A:G66 4.1 41.3 1.0 O2' A:A53 4.2 50.1 1.0 O3' A:A53 4.3 56.1 1.0 P A:A67 4.5 42.8 1.0 C4' A:A53 4.6 25.3 1.0 OP1 A:G54 4.6 38.9 1.0 OP2 A:G55 4.6 48.1 1.0 O4 A:U56 4.7 70.3 1.0 O6 A:G55 4.7 60.8 1.0 H61 A:A70 4.9 66.7 1.0 C3' A:A53 4.9 39.0 1.0 H5 A:U56 4.9 57.2 1.0 H8 A:G55 5.0 53.2 1.0 C8 A:G55 5.0 46.8 1.0

Magnesium binding site 4 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg305 b:45.9 occ:1.00 HO2' A:A35 2.2 78.0 1.0 O2' A:A35 2.9 90.1 1.0 H2' A:A35 3.6 76.2 1.0 C2' A:A35 3.8 73.1 1.0 H3' A:A35 4.2 76.3 1.0 H8 A:A35 4.4 77.9 1.0 O6 A:G12 4.5 98.2 1.0 C3' A:A35 4.5 71.7 1.0 N7 A:G11 4.5 124.0 1.0 H42 A:C111 4.6 94.8 1.0 H41 A:C111 4.6 94.4 1.0 O3' A:A35 4.8 74.4 1.0 H8 A:G11 4.9 128.7 1.0 N4 A:C111 4.9 94.2 1.0 OP1 A:A35 5.0 79.6 1.0

Magnesium binding site 5 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg306 b:49.3 occ:1.00 OP2 A:A35 4.3 79.9 1.0 H5'' A:G11 4.5 127.8 1.0 O4 A:U13 4.5 86.0 1.0 H5 A:U13 4.7 87.5 1.0 H3' A:G11 4.8 127.2 1.0 H62 A:A14 4.9 76.7 1.0

Magnesium binding site 6 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg307 b:40.3 occ:1.00 H62 A:A34 2.8 71.4 1.0 N7 A:A34 3.4 68.8 1.0 N6 A:A34 3.5 71.5 1.0 H61 A:A34 4.0 72.0 1.0 C5 A:A34 4.1 57.8 1.0 C6 A:A34 4.2 61.0 1.0 N7 A:A14 4.3 72.8 1.0 C8 A:A34 4.4 74.1 1.0 OP2 A:A14 4.5 76.4 1.0 H62 A:A14 4.5 76.7 1.0 H8 A:A34 4.7 72.3 1.0 H5 A:C33 4.9 81.0 1.0 H8 A:A14 4.9 78.0 1.0 C8 A:A14 5.0 78.5 1.0

Magnesium binding site 7 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg308 b:47.8 occ:1.00 N7 A:G75 3.4 82.5 1.0 O6 A:G75 3.6 86.2 1.0 C5 A:G75 4.1 78.8 1.0 C6 A:G75 4.2 82.3 1.0 C8 A:G75 4.4 82.9 1.0 N7 A:G76 4.5 93.4 1.0 H8 A:G75 4.6 85.6 1.0 H62 A:A74 4.6 79.7 1.0 N7 A:A74 4.7 79.4 1.0 O6 A:G76 4.9 96.7 1.0

Magnesium binding site 8 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg309 b:43.8 occ:1.00 N7 A:G106 4.2 86.5 1.0 O6 A:G106 4.4 86.6 1.0 N7 A:G107 4.7 93.8 1.0 H62 A:A108 4.8 97.9 1.0 OP2 A:G39 5.0 78.3 1.0

Magnesium binding site 9 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg310 b:62.5 occ:1.00 OP2 A:A91 1.9 61.0 1.0 P A:A91 2.2 57.2 1.0 OP1 A:A91 2.3 70.2 1.0 O A:HOH402 2.4 45.8 1.0 O5' A:A91 3.0 62.5 1.0 H5'' A:G54 3.3 50.8 1.0 H5' A:G54 3.4 52.0 1.0 OP2 A:G54 3.7 53.2 1.0 O3' A:A90 3.8 58.3 1.0 C5' A:G54 3.8 45.8 1.0 H8 A:A92 3.9 57.0 1.0 MG A:MG312 3.9 53.3 1.0 H5' A:A91 3.9 62.2 1.0 N7 A:A92 4.0 54.8 1.0 MG A:MG303 4.0 27.9 1.0 H3' A:A91 4.0 61.6 1.0 C5' A:A91 4.0 65.0 1.0 H3' A:A90 4.1 61.7 1.0 H3' A:A53 4.2 43.2 1.0 O3' A:A91 4.2 60.1 1.0 H8 A:A53 4.3 44.1 1.0 C8 A:A92 4.3 56.3 1.0 C3' A:A90 4.5 58.5 1.0 C3' A:A91 4.5 61.6 1.0 H4' A:G54 4.6 51.6 1.0 O5' A:G54 4.7 29.1 1.0 H5'' A:A91 4.7 61.3 1.0 OP1 A:A90 4.7 68.6 1.0 P A:G54 4.8 33.7 1.0 H5'' A:A90 4.8 63.1 1.0 H2 A:A91 4.8 60.4 1.0 C4' A:G54 4.9 49.5 1.0 O5' A:A90 4.9 68.4 1.0 C4' A:A91 4.9 61.3 1.0 C8 A:A53 4.9 44.2 1.0

Magnesium binding site 10 out of 15 in the Cryo-Em Structure of Rna Device 43, Holo State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of Rna Device 43, Holo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg311 b:55.8 occ:1.00 O6 A:G52 2.0 48.6 1.0 C6 A:G52 3.0 45.7 1.0 H1 A:G66 3.1 40.7 1.0 O6 A:G66 3.2 52.5 1.0 N1 A:G66 3.6 39.1 1.0 H62 A:A51 3.6 51.9 1.0 C5 A:G52 3.6 41.2 1.0 N7 A:G52 3.6 49.3 1.0 C6 A:G66 3.7 42.9 1.0 N6 A:A51 3.8 53.5 1.0 H61 A:A51 3.9 51.3 1.0 N1 A:G52 4.1 47.1 1.0 H1 A:G52 4.2 46.6 1.0 H5 A:C94 4.3 57.2 1.0 H62 A:A95 4.4 57.0 1.0 H41 A:C94 4.5 56.7 1.0 OP2 A:A93 4.5 70.7 1.0 C6 A:A51 4.6 46.3 1.0 H21 A:G66 4.6 41.3 1.0 C2 A:G66 4.6 33.9 1.0 C5 A:G66 4.9 35.7 1.0 C8 A:G52 4.9 44.5 1.0 C4 A:G52 4.9 35.5 1.0 N2 A:G66 5.0 35.7 1.0

J.R.Stagno, J.C.Deme, Y.-T.Lee, Y.-X.Wang, S.M.Lea. Cryo-Em Structure of Rna Device 43 Full-Length, Holo State To Be Published.