Magnesium in PDB 5mmj: Structure of the Small Subunit of the Chloroplast Ribosome

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 - 185;

Binding sites:

The binding sites of Magnesium atom in the Structure of the Small Subunit of the Chloroplast Ribosome (pdb code 5mmj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 185 binding sites of Magnesium where determined in the Structure of the Small Subunit of the Chloroplast Ribosome, PDB code: 5mmj:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1501 b:55.6 occ:1.00 OP1 a:G506 1.8 55.6 1.0 O6 a:G270 2.2 59.5 1.0 P a:G506 3.1 55.6 1.0 C6 a:G270 3.3 62.8 1.0 OP2 a:G506 3.6 57.6 1.0 O2' a:G268 3.6 60.2 1.0 O3' a:G505 3.9 58.6 1.0 N1 a:G270 3.9 60.7 1.0 OP1 a:A508 4.1 55.6 1.0 N7 a:A269 4.3 65.5 1.0 O5' a:G506 4.3 62.2 1.0 O6 a:G514 4.3 73.7 1.0 C5 a:G270 4.4 66.0 1.0 N1 a:A271 4.5 59.7 1.0 N6 a:A271 4.7 55.6 1.0 C5' a:G506 4.8 65.6 1.0 N6 a:A269 4.8 61.8 1.0 C6 a:A271 5.0 58.3 1.0 N7 a:G270 5.0 67.0 1.0

Magnesium binding site 2 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1502 b:55.6 occ:1.00 OP2 a:A508 1.9 55.6 1.0 P a:A508 3.3 55.6 1.0 OP1 a:G510 3.6 61.2 1.0 O3' a:A507 3.7 60.8 1.0 N2 a:G514 4.0 58.0 1.0 OP1 a:G505 4.1 65.0 1.0 OP1 a:A508 4.1 55.6 1.0 OP2 a:G506 4.4 57.6 1.0 O5' a:A508 4.4 55.6 1.0 O2' a:A507 4.6 62.0 1.0 C5' a:A508 4.7 58.5 1.0 P a:G510 4.9 55.6 1.0 N1 a:G514 4.9 55.6 1.0 OP1 a:A511 4.9 67.2 1.0 C3' a:A507 5.0 68.2 1.0 O5' a:G510 5.0 55.6 1.0

Magnesium binding site 3 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1503 b:55.6 occ:1.00 OP1 a:G679 3.8 68.4 1.0 O3' a:G1475 4.0 68.7 1.0 OP2 a:A764 4.0 58.1 1.0 O2' a:G1475 4.1 64.9 1.0 N1 a:A762 4.4 59.0 1.0 OP1 a:A678 4.4 76.0 1.0 OP2 a:G679 4.5 72.7 1.0 P a:G679 4.6 71.8 1.0 C2 a:A762 4.6 66.4 1.0 OP1 a:C1476 4.6 77.3 1.0 C5' a:A678 4.6 70.3 1.0 C4' a:G1475 4.8 69.7 1.0 C5' a:C1476 4.9 70.7 1.0 C3' a:G1475 4.9 64.4 1.0 O3' a:A678 5.0 67.2 1.0 P a:C1476 5.0 78.2 1.0

Magnesium binding site 4 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1504 b:55.6 occ:1.00 OP1 a:A93 1.9 60.4 1.0 OP2 a:G302 2.3 77.3 1.0 P a:A93 3.0 70.0 1.0 OP2 a:A93 3.2 70.0 1.0 P a:G302 3.8 89.5 1.0 O3' a:G92 4.1 69.4 1.0 O5' a:A93 4.1 58.3 1.0 O5' a:G302 4.4 72.7 1.0 C3' a:G92 4.7 68.0 1.0 C5' a:C301 4.7 60.9 1.0 O2' a:A300 4.7 70.3 1.0 OP1 a:G302 4.7 81.9 1.0 O3' a:C301 4.7 79.7 1.0 C3' a:C301 4.8 77.3 1.0 N7 a:G302 4.9 69.9 1.0 C2' a:G92 4.9 73.6 1.0 C8 a:G302 4.9 71.7 1.0 N3 a:A300 5.0 67.0 1.0

Magnesium binding site 5 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1505 b:55.6 occ:1.00 N7 a:G529 2.3 62.4 1.0 N7 a:G706 2.7 62.3 1.0 C8 a:G529 3.1 70.8 1.0 O6 a:G706 3.3 66.3 1.0 C5 a:G529 3.4 63.1 1.0 C5 a:G706 3.5 60.2 1.0 OP2 a:G529 3.5 81.9 1.0 C8 a:G706 3.7 61.1 1.0 C6 a:G706 3.8 58.4 1.0 O6 a:G529 3.8 64.9 1.0 C6 a:G529 4.0 64.1 1.0 N9 a:G529 4.4 69.4 1.0 OP2 a:G706 4.4 55.6 1.0 C4 a:G529 4.5 65.6 1.0 OP2 a:U528 4.6 90.2 1.0 O5' a:G529 4.6 80.8 1.0 P a:G529 4.7 85.6 1.0 C4 a:G706 4.8 63.8 1.0 C5 a:U528 4.8 72.5 1.0 N9 a:G706 4.9 60.9 1.0 C6 a:U528 4.9 67.1 1.0 OP2 a:U705 5.0 68.6 1.0

Magnesium binding site 6 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1506 b:55.6 occ:1.00 OP2 a:C1003 2.0 74.8 1.0 OP2 a:A1145 2.2 70.7 1.0 P a:C1003 3.3 79.8 1.0 P a:A1145 3.5 69.5 1.0 OP1 a:C1003 3.8 75.2 1.0 O3' a:A1144 3.8 85.6 1.0 O2' a:G1002 3.9 74.9 1.0 O3' a:G1002 4.2 75.0 1.0 N7 a:G1146 4.3 61.8 1.0 N7 a:A1145 4.3 62.9 1.0 O5' a:A1145 4.3 65.5 1.0 O5' a:C1003 4.3 76.3 1.0 C8 a:A1145 4.4 65.7 1.0 O2' a:A1144 4.6 95.8 1.0 OP2 a:G1146 4.6 67.8 1.0 OP1 a:A1145 4.7 68.5 1.0 O4 a:U1147 4.8 64.4 1.0 C8 a:G1146 4.9 56.1 1.0 C3' a:A1144 5.0 94.1 1.0

Magnesium binding site 7 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1507 b:59.1 occ:1.00 OP1 a:A1145 2.0 68.5 1.0 OP1 a:C1003 2.3 75.2 1.0 OP2 a:G1146 2.3 67.8 1.0 P a:A1145 3.2 69.5 1.0 P a:G1146 3.3 70.7 1.0 P a:C1003 3.5 79.8 1.0 OP1 a:G1146 3.5 67.7 1.0 OP2 a:A1145 3.6 70.7 1.0 O5' a:C1003 3.6 76.3 1.0 C5' a:C1003 4.1 77.1 1.0 O3' a:A1145 4.1 69.8 1.0 C5' a:A1145 4.1 63.5 1.0 O5' a:A1145 4.1 65.5 1.0 O3' a:A1144 4.4 85.6 1.0 OP2 a:C1003 4.4 74.8 1.0 C3' a:A1145 4.6 62.0 1.0 O3' a:G1002 4.6 75.0 1.0 O5' a:G1146 4.7 64.2 1.0 C3' a:A1144 4.7 94.1 1.0 C3' a:G1002 4.7 73.3 1.0 O2 a:C1003 4.8 95.9 1.0 C4' a:A1145 4.9 60.5 1.0

Magnesium binding site 8 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1508 b:55.6 occ:1.00 OP1 a:U1147 2.1 61.3 1.0 OP1 a:A913 2.4 73.7 1.0 P a:U1147 3.0 55.6 1.0 OP2 a:U1147 3.1 66.0 1.0 P a:A913 3.8 67.4 1.0 O3' a:G1146 3.9 60.1 1.0 OP1 a:G1146 4.0 67.7 1.0 C5' a:A913 4.1 68.2 1.0 O3' a:G912 4.3 66.2 1.0 O5' a:A913 4.4 68.5 1.0 O5' a:U1147 4.4 55.6 1.0 OP2 a:U914 4.4 74.5 1.0 O5' a:G1146 4.5 64.2 1.0 P a:G1146 4.8 70.7 1.0 C3' a:G1146 4.9 59.3 1.0 OP2 a:A913 4.9 65.4 1.0 C5' a:G1146 4.9 63.4 1.0

Magnesium binding site 9 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1509 b:55.6 occ:1.00 OP1 a:G1457 1.9 61.5 1.0 OP1 a:G1454 2.1 59.7 1.0 OP1 a:A1449 2.6 55.6 1.0 P a:G1457 3.0 70.2 1.0 O3' a:A1456 3.0 66.8 1.0 P a:G1454 3.4 55.6 1.0 O5' a:G1454 3.7 69.1 1.0 P a:A1449 3.8 55.6 1.0 OP1 a:G1453 4.0 57.8 1.0 OP2 a:G1457 4.0 70.6 1.0 O5' a:G1457 4.1 64.8 1.0 OP2 a:A1449 4.2 56.2 1.0 C5' a:G1457 4.2 61.2 1.0 C3' a:G1453 4.3 55.6 1.0 O3' a:G1453 4.3 55.6 1.0 C3' a:A1456 4.3 66.8 1.0 OP2 a:G1454 4.5 59.8 1.0 C5' a:G1454 4.6 87.5 1.0 O5' a:A1449 4.6 55.6 1.0 OP2 a:C1450 4.8 59.1 1.0 O2' a:U1455 4.8 66.7 1.0 C4' a:A1456 4.8 72.7 1.0 O2' a:A1456 4.9 70.8 1.0 O3' a:A1448 4.9 60.8 1.0 O2' a:G1453 5.0 55.6 1.0 P a:G1453 5.0 55.6 1.0

Magnesium binding site 10 out of 185 in the Structure of the Small Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of the Small Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg1510 b:55.6 occ:1.00 OP2 a:A1448 2.0 72.4 1.0 OP2 a:A1449 2.2 56.2 1.0 OP2 a:G1454 2.7 59.8 1.0 P a:A1448 3.3 70.8 1.0 P a:G1454 3.5 55.6 1.0 O3' a:U1447 3.6 69.8 1.0 P a:A1449 3.7 55.6 1.0 O3' a:G1453 3.7 55.6 1.0 OP1 a:G1454 3.9 59.7 1.0 O5' a:A1448 4.1 73.3 1.0 O2' a:G1453 4.2 55.6 1.0 C3' a:A1448 4.2 71.9 1.0 O5' a:A1449 4.3 55.6 1.0 O3' a:A1448 4.4 60.8 1.0 OP1 a:A1448 4.5 65.7 1.0 C5' a:A1448 4.5 76.4 1.0 O2' a:U1447 4.6 86.3 1.0 N7 a:A1449 4.7 63.5 1.0 OP1 a:A1449 4.7 55.6 1.0 C8 a:A1449 4.7 60.5 1.0 C3' a:U1447 4.8 71.3 1.0 C3' a:G1453 4.9 55.6 1.0 C4' a:A1448 4.9 75.3 1.0

P.Bieri, M.Leibundgut, M.Saurer, D.Boehringer, N.Ban. The Complete Structure of the Chloroplast 70S Ribosome in Complex with Translation Factor Py. Embo J. V. 36 475 2017.
ISSN: ESSN 1460-2075
PubMed: 28007896
DOI: 10.15252/EMBJ.201695959