Magnesium in PDB 6yxr: Dunaliella Minimal Photosystem I

All present enzymatic activity of Dunaliella Minimal Photosystem I:
1.97.1.12;

The structure of Dunaliella Minimal Photosystem I also contains other interesting chemical elements:

Iron

(Fe)

12 atoms

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 - 145;

Binding sites:

The binding sites of Magnesium atom in the Dunaliella Minimal Photosystem I (pdb code 6yxr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 145 binding sites of Magnesium where determined in the Dunaliella Minimal Photosystem I, PDB code: 6yxr:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg601 b:48.7 occ:1.00 MG 1:CLA601 0.0 48.7 1.0 NB 1:CLA601 2.0 48.7 1.0 ND 1:CLA601 2.0 48.7 1.0 NA 1:CLA601 2.1 48.7 1.0 NC 1:CLA601 2.1 48.7 1.0 C4D 1:CLA601 2.9 48.7 1.0 OE1 1:GLU177 3.0 47.8 1.0 C1B 1:CLA601 3.0 48.7 1.0 C4A 1:CLA601 3.0 48.7 1.0 C4B 1:CLA601 3.0 48.7 1.0 C1C 1:CLA601 3.1 48.7 1.0 C1A 1:CLA601 3.1 48.7 1.0 C4C 1:CLA601 3.1 48.7 1.0 C1D 1:CLA601 3.1 48.7 1.0 CHB 1:CLA601 3.4 48.7 1.0 CHC 1:CLA601 3.4 48.7 1.0 CHA 1:CLA601 3.5 48.7 1.0 CHD 1:CLA601 3.5 48.7 1.0 CD 1:GLU177 3.7 47.8 1.0 OE2 1:GLU177 4.1 47.8 1.0 NE 1:ARG80 4.1 47.4 1.0 C3D 1:CLA601 4.3 48.7 1.0 C2B 1:CLA601 4.3 48.7 1.0 C3B 1:CLA601 4.3 48.7 1.0 C2C 1:CLA601 4.3 48.7 1.0 C2D 1:CLA601 4.3 48.7 1.0 C3C 1:CLA601 4.4 48.7 1.0 C3A 1:CLA601 4.4 48.7 1.0 C2A 1:CLA601 4.4 48.7 1.0 NH2 1:ARG80 4.4 47.4 1.0 CZ 1:ARG80 4.5 47.4 1.0 CG 1:GLU177 4.6 47.8 1.0 C18 1:LUT501 4.6 93.7 1.0 O2A 1:CLA601 4.8 48.7 1.0 C19 1:LUT501 4.8 93.7 1.0 C5 1:LUT501 4.8 93.7 1.0 CD 1:ARG80 4.9 47.4 1.0 C4 1:LUT501 4.9 93.7 1.0 CBD 1:CLA601 4.9 48.7 1.0 CBA 1:CLA601 5.0 48.7 1.0

Magnesium binding site 2 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg602 b:47.5 occ:1.00 MG 1:CLA602 0.0 47.5 1.0 NB 1:CLA602 2.0 47.5 1.0 ND 1:CLA602 2.0 47.5 1.0 NC 1:CLA602 2.1 47.5 1.0 NA 1:CLA602 2.1 47.5 1.0 C4D 1:CLA602 2.9 47.5 1.0 C1B 1:CLA602 3.0 47.5 1.0 OD1 1:ASN180 3.0 46.7 1.0 C4A 1:CLA602 3.0 47.5 1.0 C4B 1:CLA602 3.1 47.5 1.0 C1C 1:CLA602 3.1 47.5 1.0 C4C 1:CLA602 3.1 47.5 1.0 C1D 1:CLA602 3.1 47.5 1.0 C1A 1:CLA602 3.2 47.5 1.0 CHB 1:CLA602 3.4 47.5 1.0 CHC 1:CLA602 3.4 47.5 1.0 CHA 1:CLA602 3.5 47.5 1.0 CHD 1:CLA602 3.5 47.5 1.0 CG 1:ASN180 3.9 46.7 1.0 C3D 1:CLA602 4.3 47.5 1.0 C2B 1:CLA602 4.3 47.5 1.0 C3B 1:CLA602 4.3 47.5 1.0 C2C 1:CLA602 4.3 47.5 1.0 C2D 1:CLA602 4.3 47.5 1.0 C3C 1:CLA602 4.4 47.5 1.0 C3A 1:CLA602 4.4 47.5 1.0 C2A 1:CLA602 4.5 47.5 1.0 ND2 1:ASN180 4.5 46.7 1.0 CB 1:ASN180 4.8 46.7 1.0 CBD 1:CLA602 4.9 47.5 1.0

Magnesium binding site 3 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg603 b:46.8 occ:1.00 MG 1:CLA603 0.0 46.8 1.0 NB 1:CLA603 2.0 46.8 1.0 ND 1:CLA603 2.0 46.8 1.0 NA 1:CLA603 2.1 46.8 1.0 NC 1:CLA603 2.1 46.8 1.0 C4D 1:CLA603 2.9 46.8 1.0 C1B 1:CLA603 3.0 46.8 1.0 C4A 1:CLA603 3.0 46.8 1.0 C4B 1:CLA603 3.1 46.8 1.0 C1C 1:CLA603 3.1 46.8 1.0 C4C 1:CLA603 3.1 46.8 1.0 C1D 1:CLA603 3.1 46.8 1.0 C1A 1:CLA603 3.2 46.8 1.0 CHB 1:CLA603 3.4 46.8 1.0 CHC 1:CLA603 3.4 46.8 1.0 CHA 1:CLA603 3.5 46.8 1.0 CHD 1:CLA603 3.5 46.8 1.0 C2 1:CLA603 3.6 46.8 1.0 C1 1:CLA603 3.7 46.8 1.0 CA 1:GLY190 4.2 47.2 1.0 O 1:GLY190 4.2 47.2 1.0 C3D 1:CLA603 4.3 46.8 1.0 C2B 1:CLA603 4.3 46.8 1.0 C3B 1:CLA603 4.3 46.8 1.0 C2C 1:CLA603 4.3 46.8 1.0 C2D 1:CLA603 4.3 46.8 1.0 C3C 1:CLA603 4.4 46.8 1.0 C3A 1:CLA603 4.4 46.8 1.0 C2A 1:CLA603 4.4 46.8 1.0 C3 1:CLA603 4.5 46.8 1.0 CB 1:GLN194 4.6 48.5 1.0 C 1:GLY190 4.6 47.2 1.0 O1A 1:CLA603 4.6 46.8 1.0 CGA 1:CLA603 4.6 46.8 1.0 O2A 1:CLA603 4.7 46.8 1.0 CBD 1:CLA603 5.0 46.8 1.0

Magnesium binding site 4 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg604 b:44.9 occ:1.00 MG 1:CLA604 0.0 44.9 1.0 OE2 1:GLU75 1.9 45.4 1.0 NB 1:CLA604 2.0 44.9 1.0 ND 1:CLA604 2.0 44.9 1.0 NA 1:CLA604 2.1 44.9 1.0 NC 1:CLA604 2.1 44.9 1.0 C4D 1:CLA604 2.9 44.9 1.0 C1B 1:CLA604 3.0 44.9 1.0 C4A 1:CLA604 3.0 44.9 1.0 C4B 1:CLA604 3.0 44.9 1.0 C1C 1:CLA604 3.1 44.9 1.0 C4C 1:CLA604 3.1 44.9 1.0 C1D 1:CLA604 3.1 44.9 1.0 C1A 1:CLA604 3.1 44.9 1.0 CD 1:GLU75 3.2 45.4 1.0 CHB 1:CLA604 3.4 44.9 1.0 CHC 1:CLA604 3.4 44.9 1.0 CHA 1:CLA604 3.5 44.9 1.0 CHD 1:CLA604 3.5 44.9 1.0 C36 1:XAT502 3.5 90.0 1.0 OE1 1:GLU75 4.1 45.4 1.0 CG 1:GLU75 4.1 45.4 1.0 C3D 1:CLA604 4.3 44.9 1.0 C2B 1:CLA604 4.3 44.9 1.0 C3B 1:CLA604 4.3 44.9 1.0 C2D 1:CLA604 4.3 44.9 1.0 C2C 1:CLA604 4.3 44.9 1.0 C3C 1:CLA604 4.4 44.9 1.0 C3A 1:CLA604 4.4 44.9 1.0 C2A 1:CLA604 4.5 44.9 1.0 NH2 1:ARG182 4.7 45.6 1.0 CB 1:GLU75 4.8 45.4 1.0 NE 1:ARG182 4.8 45.6 1.0 CBD 1:CLA604 4.9 44.9 1.0 C21 1:XAT502 5.0 90.0 1.0

Magnesium binding site 5 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg605 b:43.2 occ:1.00 MG 1:CLA605 0.0 43.2 1.0 NB 1:CLA605 2.0 43.2 1.0 ND 1:CLA605 2.0 43.2 1.0 NA 1:CLA605 2.1 43.2 1.0 NC 1:CLA605 2.1 43.2 1.0 NE2 1:HIS78 2.6 45.3 1.0 C4D 1:CLA605 2.9 43.2 1.0 C1B 1:CLA605 3.0 43.2 1.0 C4A 1:CLA605 3.0 43.2 1.0 C4B 1:CLA605 3.0 43.2 1.0 C1C 1:CLA605 3.1 43.2 1.0 CE1 1:HIS78 3.1 45.3 1.0 C4C 1:CLA605 3.1 43.2 1.0 C1D 1:CLA605 3.1 43.2 1.0 C1A 1:CLA605 3.2 43.2 1.0 CHB 1:CLA605 3.4 43.2 1.0 CHC 1:CLA605 3.4 43.2 1.0 CHA 1:CLA605 3.5 43.2 1.0 CHD 1:CLA605 3.5 43.2 1.0 CD2 1:HIS78 3.8 45.3 1.0 C2B 1:CLA605 4.3 43.2 1.0 C3D 1:CLA605 4.3 43.2 1.0 C3B 1:CLA605 4.3 43.2 1.0 C2C 1:CLA605 4.3 43.2 1.0 C2D 1:CLA605 4.3 43.2 1.0 C3C 1:CLA605 4.4 43.2 1.0 ND1 1:HIS78 4.4 45.3 1.0 C3A 1:CLA605 4.4 43.2 1.0 C2A 1:CLA605 4.4 43.2 1.0 CG 1:HIS78 4.8 45.3 1.0 CMA 1:CLA612 4.8 91.5 1.0 CBD 1:CLA605 4.9 43.2 1.0

Magnesium binding site 6 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg606 b:52.3 occ:1.00 MG 1:CLA606 0.0 52.3 1.0 NB 1:CLA606 2.0 52.3 1.0 ND 1:CLA606 2.0 52.3 1.0 NA 1:CLA606 2.1 52.3 1.0 NC 1:CLA606 2.1 52.3 1.0 C4D 1:CLA606 2.9 52.3 1.0 C1B 1:CLA606 3.0 52.3 1.0 C4A 1:CLA606 3.0 52.3 1.0 C4B 1:CLA606 3.1 52.3 1.0 C1C 1:CLA606 3.1 52.3 1.0 C4C 1:CLA606 3.1 52.3 1.0 C1D 1:CLA606 3.1 52.3 1.0 C1A 1:CLA606 3.2 52.3 1.0 C28 1:BCR503 3.4 0.6 1.0 CHB 1:CLA606 3.4 52.3 1.0 CHC 1:CLA606 3.4 52.3 1.0 CHA 1:CLA606 3.5 52.3 1.0 CHD 1:CLA606 3.5 52.3 1.0 C27 1:BCR503 3.6 0.6 1.0 C3D 1:CLA606 4.3 52.3 1.0 C2B 1:CLA606 4.3 52.3 1.0 C3B 1:CLA606 4.3 52.3 1.0 C2D 1:CLA606 4.3 52.3 1.0 C2C 1:CLA606 4.3 52.3 1.0 C3C 1:CLA606 4.4 52.3 1.0 C3A 1:CLA606 4.4 52.3 1.0 C2A 1:CLA606 4.5 52.3 1.0 C17 1:XAT502 4.7 90.0 1.0 C26 1:BCR503 4.7 0.6 1.0 C29 1:BCR503 4.8 0.6 1.0 CBD 1:CLA606 4.9 52.3 1.0

Magnesium binding site 7 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg607 b:46.5 occ:1.00 MG 1:CLA607 0.0 46.5 1.0 NB 1:CLA607 2.0 46.5 1.0 ND 1:CLA607 2.0 46.5 1.0 NA 1:CLA607 2.1 46.5 1.0 NC 1:CLA607 2.1 46.5 1.0 O4 1:LHG801 2.1 46.4 1.0 C4D 1:CLA607 2.9 46.5 1.0 C1B 1:CLA607 3.0 46.5 1.0 C4A 1:CLA607 3.0 46.5 1.0 C4B 1:CLA607 3.1 46.5 1.0 C1C 1:CLA607 3.1 46.5 1.0 C1A 1:CLA607 3.1 46.5 1.0 C1D 1:CLA607 3.1 46.5 1.0 C4C 1:CLA607 3.1 46.5 1.0 CHB 1:CLA607 3.4 46.5 1.0 CHC 1:CLA607 3.4 46.5 1.0 CHA 1:CLA607 3.5 46.5 1.0 P 1:LHG801 3.5 46.4 1.0 CHD 1:CLA607 3.5 46.5 1.0 C4 1:LHG801 4.1 46.4 1.0 O6 1:LHG801 4.1 46.4 1.0 C3D 1:CLA607 4.3 46.5 1.0 C2B 1:CLA607 4.3 46.5 1.0 C3B 1:CLA607 4.3 46.5 1.0 C2C 1:CLA607 4.3 46.5 1.0 C2D 1:CLA607 4.3 46.5 1.0 C3C 1:CLA607 4.4 46.5 1.0 CMD 1:CLA602 4.4 47.5 1.0 C3A 1:CLA607 4.4 46.5 1.0 C2A 1:CLA607 4.5 46.5 1.0 O5 1:LHG801 4.5 46.4 1.0 O3 1:LHG801 4.6 46.4 1.0 CBD 1:CLA607 4.9 46.5 1.0

Magnesium binding site 8 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg608 b:46.4 occ:1.00 MG 1:CLA608 0.0 46.4 1.0 NE2 1:HIS209 1.4 91.0 1.0 NB 1:CLA608 2.0 46.4 1.0 ND 1:CLA608 2.0 46.4 1.0 NC 1:CLA608 2.1 46.4 1.0 NA 1:CLA608 2.1 46.4 1.0 CE1 1:HIS209 2.2 91.0 1.0 CD2 1:HIS209 2.6 91.0 1.0 C4D 1:CLA608 2.9 46.4 1.0 C1B 1:CLA608 3.0 46.4 1.0 C4A 1:CLA608 3.0 46.4 1.0 C4B 1:CLA608 3.0 46.4 1.0 C1C 1:CLA608 3.1 46.4 1.0 C4C 1:CLA608 3.1 46.4 1.0 C1D 1:CLA608 3.1 46.4 1.0 C1A 1:CLA608 3.2 46.4 1.0 ND1 1:HIS209 3.3 91.0 1.0 CHB 1:CLA608 3.4 46.4 1.0 CHC 1:CLA608 3.4 46.4 1.0 CHA 1:CLA608 3.5 46.4 1.0 CG 1:HIS209 3.5 91.0 1.0 CHD 1:CLA608 3.5 46.4 1.0 C15 1:CHL609 4.1 45.8 1.0 C3D 1:CLA608 4.3 46.4 1.0 C2B 1:CLA608 4.3 46.4 1.0 C12 1:CHL609 4.3 45.8 1.0 C3B 1:CLA608 4.3 46.4 1.0 C2C 1:CLA608 4.3 46.4 1.0 C2D 1:CLA608 4.3 46.4 1.0 C3C 1:CLA608 4.4 46.4 1.0 C3A 1:CLA608 4.4 46.4 1.0 C2A 1:CLA608 4.5 46.4 1.0 C13 1:CHL609 4.5 45.8 1.0 C14 1:CHL609 4.7 45.8 1.0 CBD 1:CLA608 4.9 46.4 1.0 CB 1:HIS209 5.0 91.0 1.0

Magnesium binding site 9 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg609 b:45.8 occ:1.00 MG 1:CHL609 0.0 45.8 1.0 NB 1:CHL609 2.0 45.8 1.0 ND 1:CHL609 2.0 45.8 1.0 NC 1:CHL609 2.0 45.8 1.0 NA 1:CHL609 2.0 45.8 1.0 C1C 1:CHL609 2.9 45.8 1.0 C4D 1:CHL609 2.9 45.8 1.0 C4B 1:CHL609 3.0 45.8 1.0 C4A 1:CHL609 3.0 45.8 1.0 C1B 1:CHL609 3.1 45.8 1.0 C1A 1:CHL609 3.1 45.8 1.0 C4C 1:CHL609 3.1 45.8 1.0 C1D 1:CHL609 3.1 45.8 1.0 CHC 1:CHL609 3.2 45.8 1.0 O 1:PHE37 3.2 44.9 1.0 CHA 1:CHL609 3.4 45.8 1.0 CHB 1:CHL609 3.4 45.8 1.0 CHD 1:CHL609 3.5 45.8 1.0 C25 1:LHG801 4.0 46.4 1.0 C27 1:LHG801 4.0 46.4 1.0 C 1:PHE37 4.0 44.9 1.0 CA 1:PHE37 4.1 44.9 1.0 C3D 1:CHL609 4.2 45.8 1.0 CB 1:PHE37 4.2 44.9 1.0 C2C 1:CHL609 4.2 45.8 1.0 C2B 1:CHL609 4.2 45.8 1.0 C3B 1:CHL609 4.2 45.8 1.0 C26 1:LHG801 4.2 46.4 1.0 C3C 1:CHL609 4.3 45.8 1.0 C2D 1:CHL609 4.3 45.8 1.0 C2A 1:CHL609 4.3 45.8 1.0 C3A 1:CHL609 4.4 45.8 1.0 C24 1:LHG801 4.5 46.4 1.0 C29 1:LHG801 4.9 46.4 1.0 CBD 1:CHL609 4.9 45.8 1.0 CD2 1:PHE37 4.9 44.9 1.0 CAA 1:CHL609 4.9 45.8 1.0

Magnesium binding site 10 out of 145 in the Dunaliella Minimal Photosystem I


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Dunaliella Minimal Photosystem I within 5.0Å range: probe atom residue distance (Å) B Occ 1:Mg610 b:52.6 occ:1.00 MG 1:CHL610 0.0 52.6 1.0 ND 1:CHL610 2.0 52.6 1.0 NB 1:CHL610 2.0 52.6 1.0 NA 1:CHL610 2.0 52.6 1.0 NC 1:CHL610 2.1 52.6 1.0 C1C 1:CHL610 2.9 52.6 1.0 C4D 1:CHL610 2.9 52.6 1.0 C4B 1:CHL610 3.0 52.6 1.0 C4A 1:CHL610 3.0 52.6 1.0 C1B 1:CHL610 3.1 52.6 1.0 C1A 1:CHL610 3.1 52.6 1.0 C4C 1:CHL610 3.1 52.6 1.0 C1D 1:CHL610 3.1 52.6 1.0 CHC 1:CHL610 3.2 52.6 1.0 CHB 1:CHL610 3.4 52.6 1.0 CHA 1:CHL610 3.4 52.6 1.0 CHD 1:CHL610 3.5 52.6 1.0 C3D 1:CHL610 4.2 52.6 1.0 C2C 1:CHL610 4.2 52.6 1.0 C2B 1:CHL610 4.3 52.6 1.0 C3B 1:CHL610 4.3 52.6 1.0 C3C 1:CHL610 4.3 52.6 1.0 C2D 1:CHL610 4.3 52.6 1.0 C3A 1:CHL610 4.4 52.6 1.0 C2A 1:CHL610 4.4 52.6 1.0 CMC 1:CLA613 4.5 53.0 1.0 CBD 1:CHL610 4.9 52.6 1.0

I.Caspy, T.Malavath, D.Klaiman, M.Fadeeva, Y.Shkolnisky, N.Nelson. Structure and Energy Transfer Pathways of the Dunaliella Salina Photosystem I Supercomplex. Biochim Biophys Acta V.1861 48253 2020BIOENERG.
ISSN: ISSN 1879-2650
PubMed: 32569661
DOI: 10.1016/J.BBABIO.2020.148253