Magnesium in PDB 8ir8: Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay

All present enzymatic activity of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay:
1.10.3.9;

The structure of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay, PDB code: 8ir8 was solved by H.Li, M.Suga, J.R.Shen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.98 / 2.25
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	125.75, 231.6, 288.28, 90, 90, 90
R / Rfree (%)	14 / 17.6

The structure of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay also contains other interesting chemical elements:

Calcium	(Ca)	11 atoms
Iron	(Fe)	8 atoms
Manganese	(Mn)	16 atoms
Chlorine	(Cl)	8 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;

Binding sites:

The binding sites of Magnesium atom in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay (pdb code 8ir8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 80 binding sites of Magnesium where determined in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay, PDB code: 8ir8:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg404 b:42.3 occ:0.40 MG A:CLA404 0.0 42.3 0.4 MG A:CLA404 0.0 42.6 0.6 ND A:CLA404 2.0 44.4 0.6 ND A:CLA404 2.0 44.3 0.4 NA A:CLA404 2.1 44.6 0.6 NB A:CLA404 2.1 40.5 0.4 NC A:CLA404 2.1 44.3 0.4 NB A:CLA404 2.1 40.3 0.6 NA A:CLA404 2.1 44.6 0.4 NC A:CLA404 2.1 44.3 0.6 NE2 A:HIS198 2.2 45.6 0.6 NE2 A:HIS198 2.2 45.7 0.4 C4D A:CLA404 3.0 40.5 0.6 C4D A:CLA404 3.0 40.7 0.4 C4A A:CLA404 3.0 42.2 0.6 C1A A:CLA404 3.0 39.7 0.6 C1C A:CLA404 3.0 41.7 0.4 C1B A:CLA404 3.0 41.0 0.6 C1B A:CLA404 3.0 41.1 0.4 C4A A:CLA404 3.0 42.2 0.4 CE1 A:HIS198 3.1 43.2 0.6 C1C A:CLA404 3.1 41.7 0.6 CE1 A:HIS198 3.1 43.2 0.4 C1A A:CLA404 3.1 39.8 0.4 C4B A:CLA404 3.1 39.5 0.4 C4B A:CLA404 3.1 39.4 0.6 C4C A:CLA404 3.1 40.0 0.4 C4C A:CLA404 3.2 39.9 0.6 C1D A:CLA404 3.2 39.3 0.4 CD2 A:HIS198 3.3 46.4 0.6 C1D A:CLA404 3.3 39.1 0.6 CD2 A:HIS198 3.3 46.3 0.4 CHB A:CLA404 3.4 40.3 0.6 CHB A:CLA404 3.4 40.3 0.4 CHC A:CLA404 3.4 40.6 0.4 CHA A:CLA404 3.4 39.3 0.6 CHC A:CLA404 3.5 40.6 0.6 CHA A:CLA404 3.5 39.4 0.4 CHD A:CLA404 3.6 38.8 0.4 CHD A:CLA404 3.7 38.6 0.6 CE A:MET183 4.1 37.5 0.6 CE A:MET183 4.1 37.7 0.4 ND1 A:HIS198 4.2 43.1 0.6 ND1 A:HIS198 4.2 43.1 0.4 C3D A:CLA404 4.3 41.0 0.6 C3D A:CLA404 4.3 41.1 0.4 CG A:HIS198 4.4 48.2 0.6 C2A A:CLA404 4.4 45.8 0.6 C3A A:CLA404 4.4 45.6 0.6 C2B A:CLA404 4.4 41.7 0.4 C2B A:CLA404 4.4 41.8 0.6 C2C A:CLA404 4.4 41.9 0.4 CG A:HIS198 4.4 48.2 0.4 C2C A:CLA404 4.4 42.0 0.6 C3A A:CLA404 4.4 45.4 0.4 C2A A:CLA404 4.4 45.8 0.4 C3B A:CLA404 4.4 44.1 0.6 C3C A:CLA404 4.4 40.8 0.4 C3B A:CLA404 4.4 44.1 0.4 CAB D:CLA402 4.4 39.6 0.6 CAB D:CLA402 4.4 39.7 0.4 C3C A:CLA404 4.5 40.8 0.6 C2D A:CLA404 4.5 39.0 0.4 C2D A:CLA404 4.5 39.0 0.6 CBD A:CLA404 4.9 42.9 0.6 CBD A:CLA404 5.0 42.7 0.4

Magnesium binding site 2 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg404 b:42.6 occ:0.60 MG A:CLA404 0.0 42.6 0.6 MG A:CLA404 0.0 42.3 0.4 NC A:CLA404 2.0 44.3 0.4 ND A:CLA404 2.0 44.4 0.6 ND A:CLA404 2.0 44.3 0.4 NB A:CLA404 2.1 40.5 0.4 NB A:CLA404 2.1 40.3 0.6 NC A:CLA404 2.1 44.3 0.6 NA A:CLA404 2.1 44.6 0.6 NA A:CLA404 2.1 44.6 0.4 NE2 A:HIS198 2.2 45.6 0.6 NE2 A:HIS198 2.2 45.7 0.4 C4D A:CLA404 3.0 40.5 0.6 C1C A:CLA404 3.0 41.7 0.4 C4D A:CLA404 3.0 40.7 0.4 C1C A:CLA404 3.0 41.7 0.6 C1B A:CLA404 3.0 41.0 0.6 C1B A:CLA404 3.0 41.1 0.4 C4A A:CLA404 3.1 42.2 0.6 C4B A:CLA404 3.1 39.5 0.4 C4B A:CLA404 3.1 39.4 0.6 C1A A:CLA404 3.1 39.7 0.6 CE1 A:HIS198 3.1 43.2 0.6 CE1 A:HIS198 3.1 43.2 0.4 C4A A:CLA404 3.1 42.2 0.4 C4C A:CLA404 3.1 40.0 0.4 C1A A:CLA404 3.1 39.8 0.4 C4C A:CLA404 3.1 39.9 0.6 C1D A:CLA404 3.2 39.3 0.4 C1D A:CLA404 3.3 39.1 0.6 CD2 A:HIS198 3.3 46.4 0.6 CD2 A:HIS198 3.3 46.3 0.4 CHC A:CLA404 3.4 40.6 0.4 CHB A:CLA404 3.4 40.3 0.6 CHC A:CLA404 3.4 40.6 0.6 CHB A:CLA404 3.4 40.3 0.4 CHA A:CLA404 3.5 39.3 0.6 CHA A:CLA404 3.5 39.4 0.4 CHD A:CLA404 3.6 38.8 0.4 CHD A:CLA404 3.7 38.6 0.6 CE A:MET183 4.1 37.5 0.6 CE A:MET183 4.1 37.7 0.4 ND1 A:HIS198 4.2 43.1 0.6 ND1 A:HIS198 4.3 43.1 0.4 C3D A:CLA404 4.3 41.0 0.6 C3D A:CLA404 4.3 41.1 0.4 C2C A:CLA404 4.3 41.9 0.4 C2C A:CLA404 4.4 42.0 0.6 C2B A:CLA404 4.4 41.7 0.4 C2B A:CLA404 4.4 41.8 0.6 C3C A:CLA404 4.4 40.8 0.4 CG A:HIS198 4.4 48.2 0.6 C3B A:CLA404 4.4 44.1 0.6 C3B A:CLA404 4.4 44.1 0.4 C2A A:CLA404 4.4 45.8 0.6 C3A A:CLA404 4.4 45.6 0.6 CG A:HIS198 4.4 48.2 0.4 C3C A:CLA404 4.4 40.8 0.6 CAB D:CLA402 4.4 39.6 0.6 CAB D:CLA402 4.4 39.7 0.4 C3A A:CLA404 4.5 45.4 0.4 C2A A:CLA404 4.5 45.8 0.4 C2D A:CLA404 4.5 39.0 0.4 C2D A:CLA404 4.5 39.0 0.6 CBD A:CLA404 4.9 42.9 0.6 CBD A:CLA404 5.0 42.7 0.4

Magnesium binding site 3 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg405 b:43.9 occ:0.40 MG A:CLA405 0.0 43.9 0.4 MG A:CLA405 0.0 44.3 0.6 ND A:CLA405 2.0 42.9 0.6 ND A:CLA405 2.0 42.9 0.4 NB A:CLA405 2.1 45.8 0.4 NC A:CLA405 2.1 45.2 0.4 NC A:CLA405 2.1 45.2 0.6 NB A:CLA405 2.1 45.8 0.6 NA A:CLA405 2.1 46.3 0.4 NA A:CLA405 2.1 46.2 0.6 O A:HOH585 2.2 40.1 0.6 O A:HOH585 2.2 40.3 0.4 C4D A:CLA405 3.0 39.9 0.6 C4D A:CLA405 3.0 39.9 0.4 C1C A:CLA405 3.0 44.8 0.6 C1C A:CLA405 3.0 44.7 0.4 C4A A:CLA405 3.0 47.1 0.4 C1B A:CLA405 3.0 42.4 0.4 C4B A:CLA405 3.1 42.8 0.4 C4A A:CLA405 3.1 47.2 0.6 C4B A:CLA405 3.1 42.7 0.6 C1B A:CLA405 3.1 42.3 0.6 C1A A:CLA405 3.1 40.8 0.6 C1A A:CLA405 3.1 40.9 0.4 C4C A:CLA405 3.1 40.0 0.4 C4C A:CLA405 3.1 39.9 0.6 C1D A:CLA405 3.2 40.2 0.4 C1D A:CLA405 3.2 40.2 0.6 CHB A:CLA405 3.4 39.5 0.4 CHC A:CLA405 3.4 43.3 0.4 CHC A:CLA405 3.4 43.3 0.6 CHB A:CLA405 3.4 39.4 0.6 CHA A:CLA405 3.5 41.4 0.6 CHA A:CLA405 3.5 41.5 0.4 CHD A:CLA405 3.6 39.4 0.4 CHD A:CLA405 3.7 39.3 0.6 CBB A:PHO407 4.0 43.3 0.6 CBB A:PHO407 4.0 43.3 0.4 O A:HOH588 4.0 41.0 0.6 O A:HOH588 4.2 41.1 0.4 C3D A:CLA405 4.2 38.1 0.6 C3D A:CLA405 4.2 38.2 0.4 C2B A:CLA405 4.4 41.5 0.4 C2C A:CLA405 4.4 46.7 0.6 C2C A:CLA405 4.4 46.6 0.4 C3B A:CLA405 4.4 45.5 0.4 C3B A:CLA405 4.4 45.6 0.6 C3C A:CLA405 4.4 42.5 0.4 C2B A:CLA405 4.4 41.4 0.6 C3C A:CLA405 4.4 42.5 0.6 C3A A:CLA405 4.4 50.1 0.4 C3A A:CLA405 4.4 50.3 0.6 C2A A:CLA405 4.4 43.8 0.6 C2A A:CLA405 4.4 43.8 0.4 C2D A:CLA405 4.5 43.4 0.4 C2D A:CLA405 4.5 43.5 0.6 CG2 A:THR179 4.5 39.6 0.6 CG2 A:THR179 4.6 39.8 0.4 OG1 A:THR179 4.7 43.8 0.4 OG1 A:THR179 4.7 43.6 0.6 CBA A:CLA405 4.8 43.2 0.4 C19 A:PHO407 4.8 43.1 0.6 CBA A:CLA405 4.8 43.1 0.6 C19 A:PHO407 4.8 43.1 0.4 CBD A:CLA405 4.9 43.6 0.6 CBD A:CLA405 4.9 43.7 0.4

Magnesium binding site 4 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg405 b:44.3 occ:0.60 MG A:CLA405 0.0 44.3 0.6 MG A:CLA405 0.0 43.9 0.4 NB A:CLA405 2.0 45.8 0.4 ND A:CLA405 2.0 42.9 0.6 NB A:CLA405 2.0 45.8 0.6 ND A:CLA405 2.1 42.9 0.4 NC A:CLA405 2.1 45.2 0.4 NC A:CLA405 2.1 45.2 0.6 NA A:CLA405 2.1 46.3 0.4 NA A:CLA405 2.1 46.2 0.6 O A:HOH585 2.2 40.1 0.6 O A:HOH585 2.2 40.3 0.4 C4D A:CLA405 3.0 39.9 0.6 C4D A:CLA405 3.0 39.9 0.4 C1B A:CLA405 3.0 42.4 0.4 C4A A:CLA405 3.0 47.1 0.4 C1C A:CLA405 3.0 44.8 0.6 C1C A:CLA405 3.0 44.7 0.4 C4B A:CLA405 3.0 42.8 0.4 C4B A:CLA405 3.0 42.7 0.6 C1B A:CLA405 3.0 42.3 0.6 C4A A:CLA405 3.0 47.2 0.6 C1A A:CLA405 3.1 40.8 0.6 C1A A:CLA405 3.1 40.9 0.4 C4C A:CLA405 3.1 40.0 0.4 C4C A:CLA405 3.1 39.9 0.6 C1D A:CLA405 3.2 40.2 0.4 C1D A:CLA405 3.3 40.2 0.6 CHB A:CLA405 3.4 39.5 0.4 CHC A:CLA405 3.4 43.3 0.4 CHC A:CLA405 3.4 43.3 0.6 CHB A:CLA405 3.4 39.4 0.6 CHA A:CLA405 3.5 41.4 0.6 CHA A:CLA405 3.5 41.5 0.4 CHD A:CLA405 3.7 39.4 0.4 CHD A:CLA405 3.7 39.3 0.6 CBB A:PHO407 4.0 43.3 0.6 CBB A:PHO407 4.0 43.3 0.4 O A:HOH588 4.1 41.0 0.6 O A:HOH588 4.2 41.1 0.4 C3D A:CLA405 4.3 38.1 0.6 C3D A:CLA405 4.3 38.2 0.4 C2B A:CLA405 4.3 41.5 0.4 C3B A:CLA405 4.4 45.5 0.4 C3B A:CLA405 4.4 45.6 0.6 C2C A:CLA405 4.4 46.7 0.6 C2C A:CLA405 4.4 46.6 0.4 C2B A:CLA405 4.4 41.4 0.6 C3A A:CLA405 4.4 50.1 0.4 C3C A:CLA405 4.4 42.5 0.4 C3C A:CLA405 4.4 42.5 0.6 C3A A:CLA405 4.4 50.3 0.6 C2A A:CLA405 4.4 43.8 0.4 C2A A:CLA405 4.4 43.8 0.6 C2D A:CLA405 4.5 43.4 0.4 C2D A:CLA405 4.5 43.5 0.6 CG2 A:THR179 4.6 39.6 0.6 CG2 A:THR179 4.6 39.8 0.4 OG1 A:THR179 4.7 43.8 0.4 OG1 A:THR179 4.7 43.6 0.6 CBA A:CLA405 4.7 43.2 0.4 CBA A:CLA405 4.8 43.1 0.6 C19 A:PHO407 4.8 43.1 0.6 C19 A:PHO407 4.8 43.1 0.4 CBD A:CLA405 4.9 43.6 0.6 CBD A:CLA405 4.9 43.7 0.4

Magnesium binding site 5 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg406 b:47.0 occ:0.40 MG A:CLA406 0.0 47.0 0.4 MG A:CLA406 0.1 46.8 0.6 NA A:CLA406 2.0 46.2 0.6 ND A:CLA406 2.0 45.7 0.6 ND A:CLA406 2.0 45.6 0.4 NB A:CLA406 2.0 41.9 0.4 NB A:CLA406 2.1 41.7 0.6 NC A:CLA406 2.1 44.3 0.4 NA A:CLA406 2.1 46.1 0.4 NC A:CLA406 2.1 44.2 0.6 O A:HOH624 2.2 46.7 1.0 C4D A:CLA406 2.9 43.8 0.6 C4D A:CLA406 3.0 43.9 0.4 C4A A:CLA406 3.0 47.7 0.6 C1A A:CLA406 3.0 44.2 0.6 C1C A:CLA406 3.0 41.6 0.4 C1B A:CLA406 3.0 43.3 0.6 C4B A:CLA406 3.0 43.8 0.4 C1B A:CLA406 3.0 43.3 0.4 C4A A:CLA406 3.0 47.7 0.4 C1A A:CLA406 3.1 44.3 0.4 C4B A:CLA406 3.1 43.8 0.6 C1C A:CLA406 3.1 41.5 0.6 C4C A:CLA406 3.1 41.2 0.4 C4C A:CLA406 3.2 41.1 0.6 C1D A:CLA406 3.2 44.1 0.4 C1D A:CLA406 3.3 44.0 0.6 CHB A:CLA406 3.4 43.5 0.6 CHC A:CLA406 3.4 42.8 0.4 CHA A:CLA406 3.4 47.4 0.6 CHB A:CLA406 3.4 43.6 0.4 CHA A:CLA406 3.4 47.5 0.4 CHC A:CLA406 3.4 42.8 0.6 CHD A:CLA406 3.7 44.9 0.4 CHD A:CLA406 3.7 44.9 0.6 CBB A:PHO416 4.0 48.3 0.6 CBB A:PHO416 4.0 48.3 0.4 O A:HOH582 4.1 44.3 1.0 C3D A:CLA406 4.2 43.2 0.6 C3D A:CLA406 4.2 43.3 0.4 C2A A:CLA406 4.4 50.4 0.6 C3A A:CLA406 4.4 49.5 0.6 C3B A:CLA406 4.4 47.7 0.4 C2B A:CLA406 4.4 45.3 0.6 C2B A:CLA406 4.4 45.3 0.4 C2C A:CLA406 4.4 46.9 0.4 C3B A:CLA406 4.4 47.8 0.6 C3A A:CLA406 4.4 49.5 0.4 C2A A:CLA406 4.4 50.3 0.4 C3C A:CLA406 4.4 44.8 0.4 C2C A:CLA406 4.4 47.0 0.6 C2D A:CLA406 4.5 50.4 0.4 C2D A:CLA406 4.5 50.5 0.6 C3C A:CLA406 4.5 44.9 0.6 CG2 D:ILE178 4.7 39.4 1.0 C20 A:PHO416 4.8 46.5 0.4 C20 A:PHO416 4.8 46.2 0.6 CBA A:CLA406 4.8 50.7 0.6 CBD A:CLA406 4.8 49.6 0.6 CBA A:CLA406 4.8 50.7 0.4 CBD A:CLA406 4.9 49.4 0.4 CE2 A:PHE206 5.0 45.5 0.4

Magnesium binding site 6 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg406 b:46.8 occ:0.60 MG A:CLA406 0.0 46.8 0.6 MG A:CLA406 0.1 47.0 0.4 NC A:CLA406 2.0 44.3 0.4 NB A:CLA406 2.0 41.9 0.4 ND A:CLA406 2.0 45.7 0.6 NB A:CLA406 2.0 41.7 0.6 ND A:CLA406 2.0 45.6 0.4 NC A:CLA406 2.1 44.2 0.6 NA A:CLA406 2.1 46.2 0.6 NA A:CLA406 2.1 46.1 0.4 O A:HOH624 2.2 46.7 1.0 C1C A:CLA406 3.0 41.6 0.4 C4D A:CLA406 3.0 43.8 0.6 C4D A:CLA406 3.0 43.9 0.4 C4B A:CLA406 3.0 43.8 0.4 C1C A:CLA406 3.0 41.5 0.6 C4B A:CLA406 3.0 43.8 0.6 C1B A:CLA406 3.0 43.3 0.6 C4A A:CLA406 3.0 47.7 0.6 C1B A:CLA406 3.1 43.3 0.4 C1A A:CLA406 3.1 44.2 0.6 C4C A:CLA406 3.1 41.2 0.4 C4A A:CLA406 3.1 47.7 0.4 C1A A:CLA406 3.1 44.3 0.4 C4C A:CLA406 3.1 41.1 0.6 C1D A:CLA406 3.2 44.1 0.4 C1D A:CLA406 3.2 44.0 0.6 CHC A:CLA406 3.3 42.8 0.4 CHC A:CLA406 3.4 42.8 0.6 CHB A:CLA406 3.4 43.5 0.6 CHB A:CLA406 3.4 43.6 0.4 CHA A:CLA406 3.4 47.4 0.6 CHA A:CLA406 3.5 47.5 0.4 CHD A:CLA406 3.7 44.9 0.4 CHD A:CLA406 3.7 44.9 0.6 CBB A:PHO416 4.0 48.3 0.6 CBB A:PHO416 4.0 48.3 0.4 O A:HOH582 4.1 44.3 1.0 C3D A:CLA406 4.2 43.2 0.6 C3D A:CLA406 4.3 43.3 0.4 C2C A:CLA406 4.3 46.9 0.4 C3B A:CLA406 4.3 47.7 0.4 C3C A:CLA406 4.4 44.8 0.4 C3B A:CLA406 4.4 47.8 0.6 C2B A:CLA406 4.4 45.3 0.6 C2B A:CLA406 4.4 45.3 0.4 C2C A:CLA406 4.4 47.0 0.6 C3A A:CLA406 4.4 49.5 0.6 C2A A:CLA406 4.4 50.4 0.6 C3C A:CLA406 4.4 44.9 0.6 C3A A:CLA406 4.5 49.5 0.4 C2D A:CLA406 4.5 50.4 0.4 C2D A:CLA406 4.5 50.5 0.6 C2A A:CLA406 4.5 50.3 0.4 CG2 D:ILE178 4.7 39.4 1.0 C20 A:PHO416 4.8 46.5 0.4 C20 A:PHO416 4.8 46.2 0.6 CBA A:CLA406 4.9 50.7 0.6 CBD A:CLA406 4.9 49.6 0.6 CBA A:CLA406 4.9 50.7 0.4 CBD A:CLA406 4.9 49.4 0.4 CE2 A:PHE206 4.9 45.5 0.4

Magnesium binding site 7 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg408 b:49.5 occ:1.00 MG A:CLA408 0.0 49.5 1.0 ND A:CLA408 2.0 49.5 1.0 NB A:CLA408 2.0 50.3 1.0 NA A:CLA408 2.1 54.6 1.0 NC A:CLA408 2.1 51.4 1.0 NE2 A:HIS118 2.2 48.2 1.0 C4D A:CLA408 3.0 51.2 1.0 C4A A:CLA408 3.0 52.9 1.0 CE1 A:HIS118 3.0 51.0 1.0 C4B A:CLA408 3.0 53.1 1.0 C1C A:CLA408 3.0 45.1 1.0 C1B A:CLA408 3.0 53.0 1.0 C1A A:CLA408 3.0 58.7 1.0 C4C A:CLA408 3.1 43.4 1.0 C1D A:CLA408 3.2 48.3 1.0 CD2 A:HIS118 3.3 48.9 1.0 CHB A:CLA408 3.4 45.0 1.0 CHC A:CLA408 3.4 53.3 1.0 CHA A:CLA408 3.5 50.5 1.0 CHD A:CLA408 3.7 50.7 1.0 ND1 A:HIS118 4.2 46.6 1.0 C3D A:CLA408 4.2 46.3 1.0 C3B A:CLA408 4.3 51.0 1.0 C3A A:CLA408 4.4 61.1 1.0 C2B A:CLA408 4.4 45.3 1.0 C2C A:CLA408 4.4 46.7 1.0 CG A:HIS118 4.4 45.6 1.0 C2A A:CLA408 4.4 52.5 1.0 C3C A:CLA408 4.4 48.5 1.0 C2D A:CLA408 4.5 48.1 1.0 CG1 I:VAL8 4.5 49.5 1.0 CG2 I:VAL12 4.6 55.0 1.0 CBD A:CLA408 4.9 46.5 1.0 CMA A:CLA408 5.0 46.7 1.0

Magnesium binding site 8 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:72.1 occ:1.00 MG B:CLA601 0.0 72.1 1.0 ND B:CLA601 2.0 71.4 1.0 NB B:CLA601 2.0 68.4 1.0 NC B:CLA601 2.1 64.3 1.0 NA B:CLA601 2.1 79.9 1.0 O B:HOH786 2.2 67.7 1.0 C4D B:CLA601 3.0 71.3 1.0 C1C B:CLA601 3.0 58.7 1.0 C4B B:CLA601 3.0 64.2 1.0 C4A B:CLA601 3.1 76.3 1.0 C1B B:CLA601 3.1 64.6 1.0 C1A B:CLA601 3.1 76.3 1.0 C4C B:CLA601 3.2 60.5 1.0 C1D B:CLA601 3.3 74.9 1.0 CHC B:CLA601 3.4 59.3 1.0 CHB B:CLA601 3.4 70.8 1.0 CHA B:CLA601 3.5 65.4 1.0 CHD B:CLA601 3.7 63.0 1.0 C10 B:CLA601 4.1 87.0 1.0 C12 B:CLA601 4.1 77.1 1.0 C3D B:CLA601 4.3 68.8 1.0 C3B B:CLA601 4.3 55.8 1.0 O B:TRP185 4.4 69.4 1.0 C2C B:CLA601 4.4 69.0 1.0 C2B B:CLA601 4.4 63.1 1.0 C3A B:CLA601 4.4 77.4 1.0 C2A B:CLA601 4.4 74.7 1.0 C3C B:CLA601 4.4 60.4 1.0 CE2 B:PHE190 4.4 63.2 1.0 C2D B:CLA601 4.5 71.6 1.0 CBB B:CLA602 4.6 61.1 1.0 C11 B:CLA601 4.7 86.2 1.0 CZ B:PHE190 4.7 55.9 1.0 C8 B:CLA601 4.8 89.9 1.0 CBD B:CLA601 4.9 76.0 1.0 C7 B:CLA601 5.0 95.5 1.0

Magnesium binding site 9 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:52.5 occ:1.00 MG B:CLA602 0.0 52.5 1.0 NB B:CLA602 2.0 55.7 1.0 ND B:CLA602 2.0 57.3 1.0 NA B:CLA602 2.1 61.5 1.0 NC B:CLA602 2.1 58.5 1.0 ND1 B:HIS201 2.2 60.3 1.0 C4D B:CLA602 3.0 49.7 1.0 C4B B:CLA602 3.0 58.9 1.0 CE1 B:HIS201 3.0 56.0 1.0 C1A B:CLA602 3.0 49.9 1.0 C4A B:CLA602 3.0 62.9 1.0 C1B B:CLA602 3.1 64.8 1.0 C1C B:CLA602 3.1 56.3 1.0 C4C B:CLA602 3.2 54.6 1.0 C1D B:CLA602 3.3 54.2 1.0 CG B:HIS201 3.3 53.6 1.0 CHC B:CLA602 3.4 48.1 1.0 CHB B:CLA602 3.4 47.7 1.0 CHA B:CLA602 3.4 52.5 1.0 CHD B:CLA602 3.7 48.2 1.0 CB B:HIS201 3.7 51.6 1.0 CZ H:PHE41 4.0 66.3 1.0 NE2 B:HIS201 4.2 55.3 1.0 C3D B:CLA602 4.3 53.9 1.0 C3B B:CLA602 4.3 60.8 1.0 CD2 B:HIS201 4.4 49.3 1.0 C3A B:CLA602 4.4 63.4 1.0 CA B:HIS201 4.4 55.7 1.0 C2B B:CLA602 4.4 57.3 1.0 CE2 H:PHE41 4.4 66.8 1.0 C2A B:CLA602 4.4 54.0 1.0 C2C B:CLA602 4.4 57.5 1.0 C3C B:CLA602 4.5 56.0 1.0 C2D B:CLA602 4.5 46.4 1.0 CMA B:CLA602 4.9 48.9 1.0 CBD B:CLA602 4.9 51.6 1.0 CE1 B:PHE190 5.0 56.8 1.0

Magnesium binding site 10 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Xfel Structure of Cyanobacterial Photosystem II Following One Flash (1F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg603 b:50.9 occ:1.00 MG B:CLA603 0.0 50.9 1.0 ND B:CLA603 2.0 51.8 1.0 NB B:CLA603 2.0 54.5 1.0 NC B:CLA603 2.1 52.7 1.0 NA B:CLA603 2.1 51.2 1.0 NE2 B:HIS202 2.2 47.9 1.0 C4D B:CLA603 3.0 51.6 1.0 C1B B:CLA603 3.0 54.8 1.0 C4B B:CLA603 3.0 56.2 1.0 C1C B:CLA603 3.0 56.1 1.0 C4A B:CLA603 3.1 48.2 1.0 C1A B:CLA603 3.1 47.1 1.0 CD2 B:HIS202 3.1 48.8 1.0 C4C B:CLA603 3.1 46.5 1.0 CE1 B:HIS202 3.2 59.3 1.0 C1D B:CLA603 3.3 54.8 1.0 CHB B:CLA603 3.4 51.1 1.0 CHC B:CLA603 3.4 50.0 1.0 CHA B:CLA603 3.5 52.2 1.0 CHD B:CLA603 3.7 46.7 1.0 C3D B:CLA603 4.3 48.0 1.0 CG B:HIS202 4.3 55.5 1.0 ND1 B:HIS202 4.3 49.2 1.0 C3B B:CLA603 4.3 54.5 1.0 C2B B:CLA603 4.3 52.2 1.0 C2C B:CLA603 4.4 50.2 1.0 C6 B:CLA605 4.4 67.6 1.0 C2A B:CLA603 4.4 51.9 1.0 C3A B:CLA603 4.4 55.7 1.0 C3C B:CLA603 4.4 52.5 1.0 C2D B:CLA603 4.5 55.1 1.0 C7 B:CLA605 4.7 68.8 1.0 NE2 B:HIS201 4.9 55.3 1.0 C4 B:CLA605 4.9 56.4 1.0 CD2 B:HIS201 4.9 49.3 1.0 CBD B:CLA603 4.9 57.7 1.0

H.Li, Y.Nakajima, E.Nango, S.Owada, D.Yamada, K.Hashimoto, F.Luo, R.Tanaka, F.Akita, K.Kato, J.M.Kang, Y.Saitoh, S.Kishi, H.Yu, N.Matsubara, H.Fujii, M.Sugahara, M.Suzuki, T.Masuda, T.Kimura, T.N.Thao, S.Yonekura, L.J.Yu, T.Tosha, K.Tono, Y.Joti, T.Hatsui, M.Yabashi, M.Kubo, S.Iwata, H.Isobe, K.Yamaguchi, M.Suga, J.R.Shen. Oxygen-Evolving Photosystem II Structures During S1-S2-S3 Transitions. Nature 2024.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41586-023-06987-5