Magnesium in PDB 8hg3: Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri

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>>> 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 - 42;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri (pdb code 8hg3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 42 binding sites of Magnesium where determined in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri, PDB code: 8hg3:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg301 b:82.3 occ:1.00 MG S:CLA301 0.0 82.3 1.0 NB S:CLA301 2.0 61.5 1.0 ND S:CLA301 2.0 70.2 1.0 NA S:CLA301 2.1 76.2 1.0 NC S:CLA301 2.1 68.4 1.0 OE1 S:GLU61 2.2 75.0 1.0 CD S:GLU61 2.8 73.1 1.0 C4D S:CLA301 2.9 63.5 1.0 C1B S:CLA301 3.0 64.1 1.0 C4B S:CLA301 3.0 63.8 1.0 C4A S:CLA301 3.0 70.8 1.0 OE2 S:GLU61 3.1 72.6 1.0 C1C S:CLA301 3.1 69.9 1.0 C1D S:CLA301 3.1 68.9 1.0 C4C S:CLA301 3.2 62.0 1.0 C1A S:CLA301 3.2 70.1 1.0 C01 S:Q6L316 3.3 61.6 1.0 CHB S:CLA301 3.4 71.9 1.0 CHC S:CLA301 3.4 72.3 1.0 CHA S:CLA301 3.4 67.5 1.0 CHD S:CLA301 3.6 70.7 1.0 NE S:ARG186 3.9 62.6 1.0 CG S:GLU61 4.0 67.2 1.0 NH2 S:ARG186 4.1 66.0 1.0 C3D S:CLA301 4.2 61.4 1.0 C02 S:Q6L316 4.2 61.1 1.0 C2B S:CLA301 4.2 61.1 1.0 C3B S:CLA301 4.3 61.8 1.0 C2D S:CLA301 4.3 64.4 1.0 C2C S:CLA301 4.3 63.8 1.0 CZ S:ARG186 4.3 66.8 1.0 C3A S:CLA301 4.4 68.5 1.0 C3C S:CLA301 4.4 55.7 1.0 C2A S:CLA301 4.5 65.7 1.0 CB S:GLU61 4.6 65.1 1.0 C07 S:Q6L316 4.7 61.1 1.0 CD S:ARG186 4.8 64.5 1.0 CG S:ARG186 4.9 61.4 1.0 CBD S:CLA301 4.9 70.6 1.0

Magnesium binding site 2 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg302 b:73.3 occ:1.00 MG S:CLA302 0.0 73.3 1.0 NB S:CLA302 2.0 72.5 1.0 ND S:CLA302 2.0 71.9 1.0 NC S:CLA302 2.1 70.5 1.0 NA S:CLA302 2.1 71.8 1.0 NE2 S:HIS64 2.2 79.6 1.0 CD2 S:HIS64 2.8 67.1 1.0 C4D S:CLA302 2.9 65.4 1.0 C1B S:CLA302 3.0 72.1 1.0 C4B S:CLA302 3.1 71.7 1.0 C1C S:CLA302 3.1 72.5 1.0 C4A S:CLA302 3.1 66.8 1.0 C1A S:CLA302 3.1 68.1 1.0 C4C S:CLA302 3.2 67.6 1.0 C1D S:CLA302 3.2 75.4 1.0 CE1 S:HIS64 3.3 81.2 1.0 CHC S:CLA302 3.4 73.1 1.0 CHB S:CLA302 3.4 66.2 1.0 CHA S:CLA302 3.5 61.2 1.0 CHD S:CLA302 3.6 72.6 1.0 CG S:HIS64 4.0 61.1 1.0 ND1 S:HIS64 4.2 76.3 1.0 C3D S:CLA302 4.2 68.0 1.0 C2B S:CLA302 4.3 75.7 1.0 C3B S:CLA302 4.3 71.6 1.0 C2C S:CLA302 4.3 75.1 1.0 C2D S:CLA302 4.3 72.6 1.0 C3C S:CLA302 4.4 71.6 1.0 C3A S:CLA302 4.4 67.8 1.0 C2A S:CLA302 4.5 72.3 1.0 CBB S:CLA301 4.5 70.2 1.0 CBD S:CLA302 4.9 66.2 1.0

Magnesium binding site 3 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg303 b:92.2 occ:1.00 MG S:CLA303 0.0 92.2 1.0 ND S:CLA303 2.0 81.5 1.0 NB S:CLA303 2.0 87.2 1.0 NC S:CLA303 2.1 85.0 1.0 NA S:CLA303 2.1 80.4 1.0 C4D S:CLA303 2.9 77.5 1.0 C1B S:CLA303 3.0 78.8 1.0 C4A S:CLA303 3.0 80.5 1.0 C4B S:CLA303 3.1 83.1 1.0 C1C S:CLA303 3.1 81.0 1.0 C1D S:CLA303 3.1 82.3 1.0 C4C S:CLA303 3.2 83.6 1.0 C1A S:CLA303 3.2 78.4 1.0 CHB S:CLA303 3.4 80.9 1.0 CHC S:CLA303 3.4 82.7 1.0 CHA S:CLA303 3.5 77.6 1.0 O23 S:NEX317 3.5 86.4 1.0 CHD S:CLA303 3.5 85.2 1.0 C24 S:NEX317 3.9 80.8 1.0 CA S:GLY74 4.0 72.0 1.0 C23 S:NEX317 4.2 84.1 1.0 C2B S:CLA303 4.2 75.8 1.0 C3D S:CLA303 4.2 77.9 1.0 C3B S:CLA303 4.3 77.3 1.0 C2D S:CLA303 4.3 77.2 1.0 C2C S:CLA303 4.3 81.2 1.0 C3C S:CLA303 4.4 81.8 1.0 C22 S:NEX317 4.4 80.7 1.0 C3A S:CLA303 4.4 77.2 1.0 O S:GLY74 4.4 76.1 1.0 C2A S:CLA303 4.5 77.7 1.0 C S:GLY74 4.6 67.9 1.0 C33 S:Q6L316 4.6 73.5 1.0 CB S:ALA78 4.8 82.0 1.0 C40 S:Q6L316 4.8 64.0 1.0 C25 S:NEX317 4.9 81.5 1.0 CBD S:CLA303 5.0 79.1 1.0

Magnesium binding site 4 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg304 b:115.4 occ:1.00 MG S:CHL304 0.0 115.4 1.0 ND S:CHL304 2.0 109.7 1.0 NB S:CHL304 2.0 106.7 1.0 NC S:CHL304 2.1 112.0 1.0 NA S:CHL304 2.1 104.0 1.0 O S:LEU112 2.2 104.8 1.0 C4D S:CHL304 2.9 104.6 1.0 CA S:ALA113 3.0 99.3 1.0 C1B S:CHL304 3.0 107.7 1.0 C4B S:CHL304 3.1 106.2 1.0 C4A S:CHL304 3.1 106.7 1.0 C1C S:CHL304 3.1 106.5 1.0 C1D S:CHL304 3.1 107.7 1.0 C4C S:CHL304 3.1 107.3 1.0 C S:LEU112 3.1 103.7 1.0 C1A S:CHL304 3.2 102.0 1.0 N S:ALA113 3.4 98.9 1.0 CB S:ALA113 3.4 99.7 1.0 CHC S:CHL304 3.5 106.0 1.0 CHB S:CHL304 3.5 108.5 1.0 CHD S:CHL304 3.5 107.2 1.0 CHA S:CHL304 3.5 105.6 1.0 C3D S:CHL304 4.2 103.7 1.0 C S:ALA113 4.3 104.0 1.0 C2B S:CHL304 4.3 107.0 1.0 C2D S:CHL304 4.3 102.3 1.0 C3B S:CHL304 4.3 106.1 1.0 C2C S:CHL304 4.3 103.4 1.0 C3C S:CHL304 4.4 102.2 1.0 C3A S:CHL304 4.4 108.1 1.0 C2A S:CHL304 4.5 103.7 1.0 CA S:LEU112 4.5 105.7 1.0 CD S:PRO114 4.6 110.0 1.0 N S:PRO114 4.8 112.2 1.0 CBD S:CHL304 4.9 112.0 1.0 CG S:LEU112 5.0 107.3 1.0

Magnesium binding site 5 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg305 b:96.9 occ:1.00 MG S:CHL305 0.0 96.9 1.0 NB S:CHL305 2.0 89.2 1.0 ND S:CHL305 2.0 76.2 1.0 NA S:CHL305 2.1 82.9 1.0 NC S:CHL305 2.1 85.9 1.0 OE1 S:GLU129 2.9 92.3 1.0 C4D S:CHL305 2.9 75.1 1.0 C1B S:CHL305 3.0 82.8 1.0 C4B S:CHL305 3.0 84.7 1.0 C4A S:CHL305 3.0 82.4 1.0 C1C S:CHL305 3.1 84.4 1.0 C1D S:CHL305 3.1 79.2 1.0 C4C S:CHL305 3.2 79.2 1.0 C1A S:CHL305 3.2 82.3 1.0 CHC S:CHL305 3.4 83.1 1.0 CHB S:CHL305 3.4 83.1 1.0 CHA S:CHL305 3.5 77.6 1.0 CHD S:CHL305 3.6 79.8 1.0 CG1 S:VAL125 3.8 81.2 1.0 CD S:GLU129 3.9 87.5 1.0 C3D S:CHL305 4.2 82.9 1.0 C2B S:CHL305 4.3 82.8 1.0 C3B S:CHL305 4.3 78.7 1.0 C2D S:CHL305 4.3 82.8 1.0 C38 S:NEX317 4.4 79.9 1.0 C2C S:CHL305 4.4 80.6 1.0 C3A S:CHL305 4.4 83.7 1.0 C3C S:CHL305 4.4 81.8 1.0 OE2 S:GLU129 4.4 80.3 1.0 C2A S:CHL305 4.5 85.0 1.0 CBA S:CLA303 4.6 83.2 1.0 CGA S:CLA303 4.8 84.6 1.0 CB S:GLU129 4.8 85.9 1.0 CG S:GLU129 4.9 85.6 1.0 CBD S:CHL305 4.9 83.4 1.0

Magnesium binding site 6 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg306 b:81.7 occ:1.00 MG S:CHL306 0.0 81.7 1.0 ND S:CHL306 2.0 75.9 1.0 NB S:CHL306 2.0 72.7 1.0 NA S:CHL306 2.1 74.5 1.0 NC S:CHL306 2.1 79.4 1.0 C4D S:CHL306 3.0 68.3 1.0 C4A S:CHL306 3.0 73.7 1.0 C1B S:CHL306 3.0 73.0 1.0 C4B S:CHL306 3.1 77.2 1.0 C1C S:CHL306 3.1 77.0 1.0 C1D S:CHL306 3.1 78.0 1.0 C4C S:CHL306 3.1 78.1 1.0 C1A S:CHL306 3.2 76.8 1.0 CHC S:CHL306 3.4 77.4 1.0 CHD S:CHL306 3.4 78.2 1.0 CHB S:CHL306 3.4 71.6 1.0 CHA S:CHL306 3.5 69.3 1.0 OMC S:CHL305 3.9 85.2 1.0 C3D S:CHL306 4.3 69.6 1.0 C2B S:CHL306 4.3 78.6 1.0 C2D S:CHL306 4.3 74.3 1.0 C3B S:CHL306 4.4 81.3 1.0 C3A S:CHL306 4.4 74.6 1.0 C2C S:CHL306 4.4 76.5 1.0 C3C S:CHL306 4.4 75.5 1.0 C38 S:Q6L316 4.4 52.6 1.0 C2A S:CHL306 4.5 81.3 1.0 CMC S:CHL305 4.5 81.1 1.0 C01 T:IWJ321 4.6 69.4 1.0 CA S:GLY90 4.8 88.4 1.0 C37 S:Q6L316 4.8 62.6 1.0 CMA S:CHL306 4.9 81.0 1.0 C03 T:IWJ321 5.0 68.0 1.0 CBD S:CHL306 5.0 71.7 1.0

Magnesium binding site 7 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg307 b:79.6 occ:1.00 MG S:CHL307 0.0 79.6 1.0 NB S:CHL307 2.0 73.6 1.0 ND S:CHL307 2.0 75.9 1.0 NA S:CHL307 2.1 76.0 1.0 NC S:CHL307 2.1 78.3 1.0 CZ S:PHE163 2.6 93.1 1.0 C4D S:CHL307 3.0 76.4 1.0 C1B S:CHL307 3.0 74.0 1.0 CE1 S:PHE163 3.0 93.0 1.0 C4A S:CHL307 3.0 74.5 1.0 C4B S:CHL307 3.1 75.2 1.0 C1C S:CHL307 3.1 79.2 1.0 C1D S:CHL307 3.1 75.3 1.0 C4C S:CHL307 3.2 78.0 1.0 C1A S:CHL307 3.2 75.0 1.0 CHC S:CHL307 3.4 78.0 1.0 CHB S:CHL307 3.4 74.4 1.0 CHD S:CHL307 3.5 81.5 1.0 CHA S:CHL307 3.5 78.7 1.0 CE2 S:PHE163 3.7 89.5 1.0 CB S:ARG140 4.0 81.1 1.0 C3D S:CHL307 4.3 73.0 1.0 C2B S:CHL307 4.3 74.4 1.0 CA S:ARG140 4.3 83.8 1.0 O S:ALA136 4.3 78.7 1.0 CD1 S:PHE163 4.3 93.6 1.0 C3B S:CHL307 4.4 75.2 1.0 C2D S:CHL307 4.4 72.7 1.0 C3A S:CHL307 4.4 78.4 1.0 C2C S:CHL307 4.4 78.2 1.0 C3C S:CHL307 4.4 74.9 1.0 CG S:ARG140 4.4 76.1 1.0 C2A S:CHL307 4.5 70.6 1.0 N S:ARG140 4.6 80.2 1.0 CD2 S:PHE163 4.8 86.7 1.0 CMA S:CHL307 5.0 77.6 1.0 CBD S:CHL307 5.0 79.4 1.0

Magnesium binding site 8 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg308 b:79.2 occ:1.00 MG S:KC2308 0.0 79.2 1.0 ND S:KC2308 2.0 72.1 1.0 NB S:KC2308 2.0 77.3 1.0 NA S:KC2308 2.1 70.9 1.0 NC S:KC2308 2.1 70.5 1.0 OE1 S:GLU137 2.3 80.6 1.0 CD S:GLU137 2.8 80.0 1.0 OE2 S:GLU137 2.8 78.8 1.0 C4D S:KC2308 2.9 69.3 1.0 C1B S:KC2308 3.0 72.8 1.0 C4B S:KC2308 3.1 75.7 1.0 C4A S:KC2308 3.1 69.4 1.0 C1C S:KC2308 3.1 70.1 1.0 C1D S:KC2308 3.1 70.8 1.0 C1A S:KC2308 3.2 71.9 1.0 C4C S:KC2308 3.2 67.6 1.0 CHB S:KC2308 3.4 68.5 1.0 CHC S:KC2308 3.4 71.5 1.0 NH2 S:ARG140 3.5 87.9 1.0 CHA S:KC2308 3.5 68.2 1.0 CHD S:KC2308 3.5 72.0 1.0 C09 S:Q6L321 4.1 70.2 1.0 CG S:GLU137 4.1 84.5 1.0 CMB S:CLA302 4.2 79.7 1.0 C3D S:KC2308 4.2 69.8 1.0 C2B S:KC2308 4.3 75.2 1.0 C3B S:KC2308 4.3 73.7 1.0 C2D S:KC2308 4.3 69.2 1.0 C2C S:KC2308 4.3 71.5 1.0 C3C S:KC2308 4.4 64.7 1.0 C3A S:KC2308 4.4 69.0 1.0 C2A S:KC2308 4.5 73.9 1.0 CZ S:ARG140 4.5 87.5 1.0 NH1 S:ARG140 4.7 87.6 1.0 CB S:GLU137 4.8 81.3 1.0 CBD S:KC2308 5.0 68.9 1.0

Magnesium binding site 9 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg309 b:78.1 occ:1.00 MG S:CLA309 0.0 78.1 1.0 ND S:CLA309 2.0 75.1 1.0 NB S:CLA309 2.0 69.8 1.0 NA S:CLA309 2.1 71.5 1.0 NC S:CLA309 2.1 76.7 1.0 OE2 S:GLU181 2.2 80.8 1.0 C4D S:CLA309 3.0 71.3 1.0 C1B S:CLA309 3.0 68.3 1.0 C4A S:CLA309 3.0 73.2 1.0 C4B S:CLA309 3.1 72.2 1.0 C1C S:CLA309 3.1 73.2 1.0 C4C S:CLA309 3.1 74.4 1.0 C1D S:CLA309 3.2 71.3 1.0 C1A S:CLA309 3.2 68.4 1.0 CD S:GLU181 3.2 76.6 1.0 CHB S:CLA309 3.4 74.1 1.0 CHC S:CLA309 3.5 72.6 1.0 CHA S:CLA309 3.5 68.2 1.0 CHD S:CLA309 3.5 74.7 1.0 CG S:GLU181 3.7 61.7 1.0 O1A S:CLA309 3.7 73.8 0.0 NH2 S:ARG66 4.0 76.2 1.0 NE S:ARG66 4.1 60.5 1.0 OE1 S:GLU181 4.2 84.2 1.0 C3D S:CLA309 4.3 70.1 1.0 C2B S:CLA309 4.3 70.0 1.0 C3A S:CLA309 4.3 73.8 1.0 C3B S:CLA309 4.3 71.6 1.0 C2D S:CLA309 4.3 64.6 1.0 C2C S:CLA309 4.4 69.8 1.0 C3C S:CLA309 4.4 67.5 1.0 C2A S:CLA309 4.5 70.0 1.0 CZ S:ARG66 4.6 66.1 1.0 CGA S:CLA309 4.7 74.0 0.0 CB S:GLU181 4.7 70.7 1.0 C29 S:Q6L315 4.8 73.9 1.0 CMA S:CLA309 4.8 77.8 1.0 CBD S:CLA309 5.0 71.2 1.0

Magnesium binding site 10 out of 42 in the Cryo-Em Structure of the Lhcp Complex From Ostreococcus Tauri


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 the Lhcp Complex From Ostreococcus Tauri within 5.0Å range: probe atom residue distance (Å) B Occ S:Mg310 b:67.6 occ:1.00 MG S:CLA310 0.0 67.6 1.0 ND S:CLA310 2.0 67.6 1.0 NB S:CLA310 2.0 78.2 1.0 NC S:CLA310 2.1 69.5 1.0 NA S:CLA310 2.1 69.0 1.0 OE2 S:GLU37 2.3 85.0 1.0 C4D S:CLA310 2.9 69.9 1.0 CD S:GLU37 3.0 89.7 1.0 C1B S:CLA310 3.0 75.8 1.0 OE1 S:GLU37 3.1 91.0 1.0 C4B S:CLA310 3.1 72.7 1.0 C1C S:CLA310 3.1 69.5 1.0 C4A S:CLA310 3.1 66.9 1.0 C4C S:CLA310 3.2 66.5 1.0 C1D S:CLA310 3.2 65.8 1.0 C1A S:CLA310 3.2 66.2 1.0 CHC S:CLA310 3.4 72.5 1.0 CHB S:CLA310 3.5 71.3 1.0 CHA S:CLA310 3.5 68.7 1.0 CHD S:CLA310 3.6 67.3 1.0 C3D S:CLA310 4.3 71.3 1.0 C2B S:CLA310 4.3 68.4 1.0 C3B S:CLA310 4.3 67.7 1.0 NZ S:LYS183 4.3 79.8 1.0 C2C S:CLA310 4.4 66.4 1.0 C2D S:CLA310 4.4 65.3 1.0 C3C S:CLA310 4.4 64.2 1.0 CD S:LYS183 4.4 70.6 1.0 CG S:PRO36 4.5 81.6 1.0 C3A S:CLA310 4.5 61.8 1.0 CG S:GLU37 4.5 83.6 1.0 C2A S:CLA310 4.5 64.0 1.0 CD S:PRO36 4.8 73.1 1.0 CE S:LYS183 4.9 73.4 1.0 CBD S:CLA310 4.9 69.4 1.0 C40 S:Q6L320 5.0 57.0 1.0

A.Ishii, J.Shan, X.Sheng, E.Kim, A.Watanabe, M.Yokono, C.Noda, C.Song, K.Murata, Z.Liu, J.Minagawa. The Photosystem I Supercomplex From A Primordial Green Alga Ostreococcus Tauri Harbors Three Light-Harvesting Complex Trimers. Elife V. 12 2023.
ISSN: ESSN 2050-084X
PubMed: 36951548
DOI: 10.7554/ELIFE.84488