Magnesium in PDB 8hq8: Bry-Lhcii Homotrimer of Bryopsis Corticulans

The structure of Bry-Lhcii Homotrimer of Bryopsis Corticulans, PDB code: 8hq8 was solved by Z.H.Li, J.R.Shen, W.D.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.90 / 2.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	109.72, 91.61, 169.22, 90, 103.52, 90
R / Rfree (%)	20.7 / 24.9

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 - 87;

Binding sites:

The binding sites of Magnesium atom in the Bry-Lhcii Homotrimer of Bryopsis Corticulans (pdb code 8hq8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 87 binding sites of Magnesium where determined in the Bry-Lhcii Homotrimer of Bryopsis Corticulans, PDB code: 8hq8:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg305 b:75.3 occ:1.00 MG A:CHL305 0.0 75.3 1.0 ND A:CHL305 1.9 67.3 1.0 NC A:CHL305 2.1 83.8 1.0 NB A:CHL305 2.1 84.7 1.0 NA A:CHL305 2.3 83.5 1.0 O A:TRP11 2.8 76.8 1.0 C4D A:CHL305 2.9 72.2 1.0 C1D A:CHL305 2.9 71.0 1.0 C4C A:CHL305 3.1 85.4 1.0 C1C A:CHL305 3.1 89.7 1.0 C1B A:CHL305 3.1 81.7 1.0 C4B A:CHL305 3.1 87.4 1.0 C4A A:CHL305 3.3 81.4 1.0 C1A A:CHL305 3.3 75.7 1.0 CHD A:CHL305 3.5 79.9 1.0 C A:TRP11 3.5 78.2 1.0 CHC A:CHL305 3.6 91.1 1.0 CHA A:CHL305 3.6 66.5 1.0 CHB A:CHL305 3.6 78.3 1.0 C3D A:CHL305 4.1 72.5 1.0 C2D A:CHL305 4.1 76.3 1.0 N A:LEU12 4.2 79.4 1.0 CA A:TRP11 4.3 68.0 1.0 CA A:LEU12 4.3 77.9 1.0 C3C A:CHL305 4.4 80.9 1.0 C2C A:CHL305 4.4 83.1 1.0 C2B A:CHL305 4.4 82.8 1.0 C3B A:CHL305 4.4 87.7 1.0 C8 A:LHG319 4.6 64.4 1.0 C3A A:CHL305 4.6 67.9 1.0 C2A A:CHL305 4.6 66.4 1.0 C23 A:0IE302 4.8 83.1 1.0 C A:LEU12 4.9 88.2 1.0 C44 A:0IE302 4.9 76.5 1.0 C10 A:LHG319 4.9 59.8 1.0 N A:GLY13 5.0 84.7 1.0 CB A:TRP11 5.0 60.9 1.0 CBD A:CHL305 5.0 50.4 1.0

Magnesium binding site 2 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg306 b:44.3 occ:1.00 MG A:CHL306 0.0 44.3 1.0 ND A:CHL306 2.0 52.1 1.0 NB A:CHL306 2.1 45.0 1.0 NC A:CHL306 2.1 42.8 1.0 NA A:CHL306 2.2 56.8 1.0 OE2 A:GLU53 2.8 55.4 1.0 C4D A:CHL306 2.9 54.4 1.0 C1D A:CHL306 3.0 50.2 1.0 C1B A:CHL306 3.0 51.4 1.0 C4B A:CHL306 3.1 43.7 1.0 C4C A:CHL306 3.1 52.3 1.0 C1C A:CHL306 3.1 50.4 1.0 C4A A:CHL306 3.1 58.7 1.0 C1A A:CHL306 3.2 54.2 1.0 CD A:GLU53 3.3 46.1 1.0 CHB A:CHL306 3.5 54.9 1.0 CHD A:CHL306 3.6 55.2 1.0 CHA A:CHL306 3.6 55.7 1.0 CHC A:CHL306 3.6 51.8 1.0 C41 A:0IE301 3.7 42.9 1.0 CG A:GLU53 3.9 39.0 1.0 OE1 A:GLU53 4.0 58.7 1.0 C3D A:CHL306 4.2 53.3 1.0 NE A:ARG174 4.2 53.6 1.0 C2D A:CHL306 4.2 53.0 1.0 NH2 A:ARG174 4.3 53.5 1.0 C2B A:CHL306 4.3 50.7 1.0 C3B A:CHL306 4.4 44.9 1.0 C3C A:CHL306 4.4 47.8 1.0 C2C A:CHL306 4.4 45.8 1.0 C3A A:CHL306 4.5 50.9 1.0 CZ A:ARG174 4.5 50.6 1.0 C17 A:0IE301 4.5 44.6 1.0 C2A A:CHL306 4.6 45.9 1.0 CB A:GLU53 4.8 37.9 1.0 CD A:ARG174 4.9 53.2 1.0 C18 A:0IE301 5.0 48.1 1.0 CBD A:CHL306 5.0 47.0 1.0 C28 A:0IE301 5.0 38.1 1.0

Magnesium binding site 3 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg307 b:50.3 occ:1.00 MG A:CLA307 0.0 50.3 1.0 NB A:CLA307 2.0 36.2 1.0 ND A:CLA307 2.0 46.7 1.0 NC A:CLA307 2.1 51.3 1.0 NA A:CLA307 2.1 46.5 1.0 NE2 A:HIS56 2.8 37.6 1.0 C4D A:CLA307 2.9 41.6 1.0 C1B A:CLA307 3.0 47.8 1.0 C4A A:CLA307 3.0 40.9 1.0 C4B A:CLA307 3.1 41.6 1.0 C1C A:CLA307 3.1 50.2 1.0 C4C A:CLA307 3.1 43.6 1.0 C1D A:CLA307 3.1 51.9 1.0 C1A A:CLA307 3.2 42.5 1.0 CHB A:CLA307 3.4 43.2 1.0 CHC A:CLA307 3.5 42.0 1.0 CHA A:CLA307 3.5 43.1 1.0 CHD A:CLA307 3.5 51.6 1.0 CD2 A:HIS56 3.6 41.0 1.0 C9 A:CHL313 3.8 48.7 1.0 C8 A:CHL313 3.9 53.3 1.0 CE1 A:HIS56 3.9 42.8 1.0 C11 A:CHL313 3.9 71.0 1.0 C3D A:CLA307 4.3 48.3 1.0 C2B A:CLA307 4.3 43.8 1.0 C3B A:CLA307 4.3 47.0 1.0 C2C A:CLA307 4.4 55.8 1.0 C2D A:CLA307 4.4 57.6 1.0 C3C A:CLA307 4.4 42.2 1.0 C3A A:CLA307 4.4 39.1 1.0 C2A A:CLA307 4.5 31.5 1.0 C10 A:CHL313 4.5 67.5 1.0 CG A:HIS56 4.8 48.9 1.0 ND1 A:HIS56 4.9 36.6 1.0 CBD A:CLA307 5.0 39.0 1.0

Magnesium binding site 4 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg308 b:91.0 occ:1.00 MG A:CLA308 0.0 91.0 1.0 NB A:CLA308 2.0 73.7 1.0 ND A:CLA308 2.0 94.6 1.0 NC A:CLA308 2.1 93.5 1.0 NA A:CLA308 2.1 75.9 1.0 O A:HOH402 2.8 79.2 1.0 C4D A:CLA308 2.9 98.2 1.0 C1B A:CLA308 3.0 68.7 1.0 C4A A:CLA308 3.0 80.5 1.0 C4B A:CLA308 3.1 77.7 1.0 C1C A:CLA308 3.1 91.7 1.0 C4C A:CLA308 3.1 91.2 1.0 C1D A:CLA308 3.2 96.3 1.0 C1A A:CLA308 3.2 89.6 1.0 CHB A:CLA308 3.4 77.8 1.0 CHC A:CLA308 3.4 81.3 1.0 CHA A:CLA308 3.5 96.8 1.0 CHD A:CLA308 3.5 84.9 1.0 O23 A:NEX303 3.6 96.8 1.0 C22 A:NEX303 3.9 78.9 1.0 C24 A:NEX303 4.1 81.3 1.0 C23 A:NEX303 4.1 85.1 1.0 C3D A:CLA308 4.3 97.5 1.0 C2B A:CLA308 4.3 78.9 1.0 C3B A:CLA308 4.3 85.6 1.0 C2C A:CLA308 4.3 92.3 1.0 C2D A:CLA308 4.4 104.5 1.0 C3C A:CLA308 4.4 88.7 1.0 C3A A:CLA308 4.4 84.1 1.0 O A:GLY66 4.4 78.7 1.0 C2A A:CLA308 4.5 77.8 1.0 CA A:GLY66 4.5 74.5 1.0 C38 A:NEX303 4.9 86.8 1.0 C A:GLY66 4.9 74.8 1.0 CBD A:CLA308 5.0 88.6 1.0

Magnesium binding site 5 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg309 b:128.3 occ:1.00 MG A:CHL309 0.0 128.3 1.0 ND A:CHL309 1.9 124.3 1.0 NB A:CHL309 2.1 124.8 1.0 NC A:CHL309 2.1 117.1 1.0 NA A:CHL309 2.3 126.9 1.0 O A:VAL108 2.7 120.0 1.0 C4D A:CHL309 2.9 122.5 1.0 C1D A:CHL309 2.9 118.7 1.0 C1B A:CHL309 3.1 124.0 1.0 C4B A:CHL309 3.1 116.1 1.0 C4C A:CHL309 3.1 109.2 1.0 C1C A:CHL309 3.1 112.1 1.0 C4A A:CHL309 3.2 128.6 1.0 C1A A:CHL309 3.2 133.5 1.0 CHD A:CHL309 3.5 104.5 1.0 CHA A:CHL309 3.5 123.7 1.0 CHB A:CHL309 3.6 129.0 1.0 CHC A:CHL309 3.6 112.2 1.0 C A:VAL108 3.8 121.0 1.0 C3D A:CHL309 4.1 133.6 1.0 CA A:VAL108 4.1 125.8 1.0 C2D A:CHL309 4.2 120.6 1.0 C2B A:CHL309 4.4 125.0 1.0 C3B A:CHL309 4.4 120.5 1.0 C3C A:CHL309 4.4 105.2 1.0 C2C A:CHL309 4.4 112.6 1.0 C3A A:CHL309 4.5 134.0 1.0 C2A A:CHL309 4.6 133.0 1.0 CBD A:CHL309 4.9 123.3 1.0 N A:VAL108 4.9 118.1 1.0 N A:HIS109 4.9 122.6 1.0

Magnesium binding site 6 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg310 b:81.3 occ:1.00 MG A:CHL310 0.0 81.3 1.0 ND A:CHL310 1.8 90.7 1.0 NB A:CHL310 2.1 81.4 1.0 NC A:CHL310 2.2 70.2 1.0 NA A:CHL310 2.2 83.2 1.0 C4D A:CHL310 2.8 101.1 1.0 C1D A:CHL310 2.9 96.7 1.0 C1B A:CHL310 3.1 80.8 1.0 C4B A:CHL310 3.1 74.2 1.0 O A:HOH405 3.1 80.4 1.0 C4C A:CHL310 3.2 83.4 1.0 C1C A:CHL310 3.2 83.5 1.0 C1A A:CHL310 3.2 94.8 1.0 C4A A:CHL310 3.2 92.5 1.0 CHA A:CHL310 3.5 97.2 1.0 CHD A:CHL310 3.5 89.5 1.0 CHB A:CHL310 3.6 77.9 1.0 CHC A:CHL310 3.6 82.9 1.0 OE1 A:GLN120 3.8 69.1 1.0 C3D A:CHL310 4.0 91.6 1.0 C2D A:CHL310 4.1 90.5 1.0 C38 A:NEX303 4.1 86.8 1.0 CG2 A:ILE116 4.3 89.9 1.0 C2B A:CHL310 4.4 78.8 1.0 C3B A:CHL310 4.4 77.0 1.0 C3C A:CHL310 4.5 76.5 1.0 C2C A:CHL310 4.5 84.1 1.0 C3A A:CHL310 4.5 93.3 1.0 C2A A:CHL310 4.5 98.2 1.0 CD A:GLN120 4.8 65.4 1.0 CBD A:CHL310 4.9 96.6 1.0 CAA A:CLA308 4.9 79.8 1.0

Magnesium binding site 7 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg311 b:65.1 occ:1.00 MG A:CHL311 0.0 65.1 1.0 ND A:CHL311 1.8 67.9 1.0 NB A:CHL311 2.1 66.0 1.0 NC A:CHL311 2.2 68.4 1.0 NA A:CHL311 2.3 66.0 1.0 C4D A:CHL311 2.8 72.5 1.0 O A:HOH401 2.9 74.5 1.0 C1D A:CHL311 2.9 76.2 1.0 C1B A:CHL311 3.1 62.3 1.0 C4B A:CHL311 3.1 56.1 1.0 C4C A:CHL311 3.1 61.2 1.0 C1C A:CHL311 3.1 70.7 1.0 C4A A:CHL311 3.2 60.5 1.0 C1A A:CHL311 3.2 76.7 1.0 CHD A:CHL311 3.5 75.6 1.0 CHA A:CHL311 3.5 78.2 1.0 OMC A:CHL310 3.6 73.6 1.0 CHB A:CHL311 3.6 61.7 1.0 CHC A:CHL311 3.6 66.3 1.0 C15 B:CHL306 3.8 60.1 1.0 C3D A:CHL311 4.0 77.6 1.0 CMC A:CHL310 4.1 82.1 1.0 C2D A:CHL311 4.1 78.0 1.0 C17 B:CHL306 4.1 72.7 1.0 C2B A:CHL311 4.4 54.2 1.0 C3B A:CHL311 4.4 51.7 1.0 C2C A:CHL311 4.4 75.2 1.0 C3C A:CHL311 4.4 70.5 1.0 C3A A:CHL311 4.5 62.7 1.0 C2A A:CHL311 4.6 66.7 1.0 C16 B:CHL306 4.6 56.9 1.0 C14 B:CHL306 4.7 70.0 1.0 C13 B:CHL306 4.9 69.3 1.0 CBD A:CHL311 4.9 75.3 1.0

Magnesium binding site 8 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg312 b:86.2 occ:1.00 MG A:CHL312 0.0 86.2 1.0 ND A:CHL312 1.9 61.3 1.0 NB A:CHL312 2.1 78.7 1.0 NC A:CHL312 2.2 69.5 1.0 NA A:CHL312 2.3 68.3 1.0 C4D A:CHL312 2.9 62.4 1.0 O A:HOH406 2.9 68.3 1.0 C1D A:CHL312 2.9 63.0 1.0 C1B A:CHL312 3.0 83.3 1.0 C4B A:CHL312 3.1 66.3 1.0 C4C A:CHL312 3.1 75.9 1.0 C1C A:CHL312 3.1 68.5 1.0 C4A A:CHL312 3.2 71.7 1.0 C1A A:CHL312 3.2 75.6 1.0 CZ A:PHE150 3.3 64.1 1.0 CHA A:CHL312 3.5 71.2 1.0 CHD A:CHL312 3.5 73.5 1.0 CE1 A:PHE150 3.6 78.1 1.0 CHB A:CHL312 3.6 78.3 1.0 CHC A:CHL312 3.6 72.8 1.0 C3D A:CHL312 4.1 69.4 1.0 C2D A:CHL312 4.2 64.8 1.0 CE2 A:PHE150 4.3 72.1 1.0 C2B A:CHL312 4.3 74.5 1.0 C3B A:CHL312 4.4 78.5 1.0 O A:ALA127 4.4 73.1 1.0 C3C A:CHL312 4.4 60.9 1.0 C2C A:CHL312 4.4 75.0 1.0 C3A A:CHL312 4.5 62.5 1.0 C2A A:CHL312 4.6 68.8 1.0 CD1 A:PHE150 4.7 72.3 1.0 CBD A:CHL312 4.9 64.5 1.0 CB A:ARG131 5.0 66.2 1.0

Magnesium binding site 9 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg313 b:58.8 occ:1.00 MG A:CHL313 0.0 58.8 1.0 ND A:CHL313 2.0 58.2 1.0 NB A:CHL313 2.0 60.1 1.0 NC A:CHL313 2.1 57.1 1.0 NA A:CHL313 2.3 50.3 1.0 OE2 A:GLU128 2.8 64.4 1.0 C4D A:CHL313 2.9 56.4 1.0 C1B A:CHL313 3.0 56.2 1.0 C4B A:CHL313 3.0 60.8 1.0 C1D A:CHL313 3.0 55.0 1.0 C1C A:CHL313 3.0 67.5 1.0 C4C A:CHL313 3.0 56.2 1.0 C4A A:CHL313 3.3 58.2 1.0 C1A A:CHL313 3.3 51.3 1.0 CHC A:CHL313 3.5 65.8 1.0 CHD A:CHL313 3.6 60.2 1.0 CHA A:CHL313 3.6 50.2 1.0 CHB A:CHL313 3.6 54.1 1.0 CD A:GLU128 3.6 68.9 1.0 CG A:GLU128 3.7 57.3 1.0 C3D A:CHL313 4.2 50.3 1.0 C4 B:CHL306 4.3 72.1 1.0 C2D A:CHL313 4.3 50.0 1.0 C2B A:CHL313 4.3 55.8 1.0 C3B A:CHL313 4.3 55.3 1.0 C3C A:CHL313 4.3 52.6 1.0 C2C A:CHL313 4.3 62.4 1.0 C3A A:CHL313 4.6 51.5 1.0 C3 B:CHL306 4.6 75.8 1.0 C2A A:CHL313 4.7 61.1 1.0 C2 B:CHL306 4.7 61.2 1.0 CB A:GLU128 4.7 58.1 1.0 CMD A:CLA307 4.8 51.8 1.0 OE1 A:GLU128 4.8 61.7 1.0 NH1 A:ARG131 4.8 46.9 1.0 CBA A:CHL313 4.9 52.1 1.0 CBD A:CHL313 5.0 45.9 1.0

Magnesium binding site 10 out of 87 in the Bry-Lhcii Homotrimer of Bryopsis Corticulans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Bry-Lhcii Homotrimer of Bryopsis Corticulans within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg314 b:68.4 occ:1.00 MG A:CLA314 0.0 68.4 1.0 ND A:CLA314 2.0 69.7 1.0 NB A:CLA314 2.0 66.0 1.0 NC A:CLA314 2.1 63.4 1.0 NA A:CLA314 2.1 78.8 1.0 OE2 A:GLU169 2.8 59.3 1.0 C4D A:CLA314 2.9 71.5 1.0 C1B A:CLA314 3.0 67.3 1.0 C4B A:CLA314 3.0 70.3 1.0 C4A A:CLA314 3.0 78.6 1.0 C1C A:CLA314 3.0 72.9 1.0 C4C A:CLA314 3.1 72.5 1.0 C1D A:CLA314 3.1 73.9 1.0 C1A A:CLA314 3.1 77.5 1.0 CHB A:CLA314 3.4 70.2 1.0 CHC A:CLA314 3.4 69.7 1.0 CHA A:CLA314 3.4 74.7 1.0 CHD A:CLA314 3.5 77.7 1.0 CD A:GLU169 3.5 67.7 1.0 CG A:GLU169 4.0 56.0 1.0 C3D A:CLA314 4.2 66.8 1.0 C2B A:CLA314 4.2 66.6 1.0 C3B A:CLA314 4.3 73.5 1.0 C2C A:CLA314 4.3 60.7 1.0 C2D A:CLA314 4.3 75.6 1.0 C3C A:CLA314 4.3 69.9 1.0 OE1 A:GLU169 4.4 74.8 1.0 C33 A:0UR322 4.4 111.1 1.0 C3A A:CLA314 4.4 68.2 1.0 C2A A:CLA314 4.4 64.5 1.0 NE A:ARG58 4.5 66.2 1.0 C17 A:0UR322 4.6 95.5 1.0 NH2 A:ARG58 4.6 65.5 1.0 O2A A:CLA314 4.6 73.3 1.0 CBA A:CLA314 4.8 83.2 1.0 CZ A:ARG58 4.8 67.8 1.0 CBD A:CLA314 4.9 72.0 1.0 CB A:GLU169 5.0 60.0 1.0

Z.Li, C.Zhou, S.Zhao, J.Zhang, X.Liu, M.Sang, X.Qin, Y.Yang, G.Han, T.Kuang, J.R.Shen, W.Wang. Structural and Functional Properties of Different Types of Siphonous Lhcii Trimers From An Intertidal Green Alga Bryopsis Corticulans. Structure 2023.
ISSN: ISSN 0969-2126
PubMed: 37633266
DOI: 10.1016/J.STR.2023.08.001