Magnesium in PDB 8irf: Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) with A 1-Microsecond Delay

All present enzymatic activity of Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) with A 1-Microsecond Delay:
1.10.3.9;

The structure of Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) with A 1-Microsecond Delay, PDB code: 8irf 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)	19.99 / 2.25
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	125.77, 231.76, 288.58, 90, 90, 90
R / Rfree (%)	13.7 / 17.3

The structure of Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) with A 1-Microsecond Delay also contains other interesting chemical elements:

Manganese	(Mn)	16 atoms
Calcium	(Ca)	11 atoms
Chlorine	(Cl)	8 atoms
Iron	(Fe)	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 Two Flashes (2F) with A 1-Microsecond Delay (pdb code 8irf). 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 Two Flashes (2F) with A 1-Microsecond Delay, PDB code: 8irf:
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 Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg404 b:41.4 occ:0.49 MG A:CLA404 0.0 41.4 0.5 MG A:CLA404 0.1 41.3 0.5 ND A:CLA404 2.0 44.0 0.5 ND A:CLA404 2.0 44.0 0.5 NA A:CLA404 2.0 44.9 0.5 NB A:CLA404 2.1 40.9 0.5 NB A:CLA404 2.1 40.9 0.5 NC A:CLA404 2.1 40.7 0.5 NA A:CLA404 2.1 44.9 0.5 NC A:CLA404 2.1 40.7 0.5 NE2 A:HIS198 2.2 43.1 0.5 NE2 A:HIS198 2.3 43.1 0.5 C4D A:CLA404 2.9 42.2 0.5 C4D A:CLA404 3.0 42.2 0.5 C4A A:CLA404 3.0 40.3 0.5 C1A A:CLA404 3.0 40.0 0.5 C1B A:CLA404 3.0 42.5 0.5 C1C A:CLA404 3.0 41.8 0.5 C1B A:CLA404 3.0 42.5 0.5 CE1 A:HIS198 3.0 42.8 0.5 C4A A:CLA404 3.1 40.3 0.5 C1C A:CLA404 3.1 41.8 0.5 C1A A:CLA404 3.1 40.0 0.5 C4B A:CLA404 3.1 39.6 0.5 C4B A:CLA404 3.1 39.6 0.5 C4C A:CLA404 3.1 42.5 0.5 CE1 A:HIS198 3.2 42.9 0.5 C4C A:CLA404 3.2 42.6 0.5 C1D A:CLA404 3.3 40.0 0.5 C1D A:CLA404 3.3 39.9 0.5 CD2 A:HIS198 3.3 46.5 0.5 CD2 A:HIS198 3.3 46.5 0.5 CHB A:CLA404 3.4 39.4 0.5 CHB A:CLA404 3.4 39.4 0.5 CHC A:CLA404 3.4 42.9 0.5 CHA A:CLA404 3.4 40.5 0.5 CHC A:CLA404 3.5 42.9 0.5 CHA A:CLA404 3.5 40.5 0.5 CHD A:CLA404 3.7 39.7 0.5 CHD A:CLA404 3.7 39.7 0.5 CE A:MET183 4.1 36.8 0.5 CE A:MET183 4.1 36.7 0.5 C3D A:CLA404 4.2 40.6 0.5 ND1 A:HIS198 4.2 40.4 0.5 C3D A:CLA404 4.3 40.5 0.5 ND1 A:HIS198 4.3 40.3 0.5 CAB D:CLA402 4.3 42.4 0.5 C2A A:CLA404 4.4 48.0 0.5 C2B A:CLA404 4.4 42.6 0.5 C3A A:CLA404 4.4 48.6 0.5 C2C A:CLA404 4.4 43.3 0.5 C2B A:CLA404 4.4 42.6 0.5 CAB D:CLA402 4.4 42.3 0.5 C3B A:CLA404 4.4 43.5 0.5 CG A:HIS198 4.4 45.1 0.5 C2A A:CLA404 4.4 48.0 0.5 C3A A:CLA404 4.4 48.6 0.5 C2C A:CLA404 4.4 43.4 0.5 C3B A:CLA404 4.4 43.5 0.5 C3C A:CLA404 4.4 40.5 0.5 CG A:HIS198 4.4 45.1 0.5 C2D A:CLA404 4.5 40.9 0.5 C3C A:CLA404 4.5 40.5 0.5 C2D A:CLA404 4.5 40.9 0.5 CBD A:CLA404 4.9 46.8 0.5 CBD A:CLA404 5.0 46.7 0.5

Magnesium binding site 2 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg404 b:41.3 occ:0.51 MG A:CLA404 0.0 41.3 0.5 MG A:CLA404 0.1 41.4 0.5 NC A:CLA404 2.0 40.7 0.5 ND A:CLA404 2.0 44.0 0.5 NB A:CLA404 2.0 40.9 0.5 ND A:CLA404 2.1 44.0 0.5 NB A:CLA404 2.1 40.9 0.5 NC A:CLA404 2.1 40.7 0.5 NA A:CLA404 2.1 44.9 0.5 NA A:CLA404 2.1 44.9 0.5 NE2 A:HIS198 2.2 43.1 0.5 NE2 A:HIS198 2.2 43.1 0.5 C4D A:CLA404 3.0 42.2 0.5 C1C A:CLA404 3.0 41.8 0.5 CE1 A:HIS198 3.0 42.8 0.5 C1B A:CLA404 3.0 42.5 0.5 C4D A:CLA404 3.0 42.2 0.5 C1C A:CLA404 3.0 41.8 0.5 C1B A:CLA404 3.1 42.5 0.5 C4A A:CLA404 3.1 40.3 0.5 C4B A:CLA404 3.1 39.6 0.5 C1A A:CLA404 3.1 40.0 0.5 C4B A:CLA404 3.1 39.6 0.5 CE1 A:HIS198 3.1 42.9 0.5 C4A A:CLA404 3.1 40.3 0.5 C4C A:CLA404 3.1 42.5 0.5 C1A A:CLA404 3.1 40.0 0.5 C4C A:CLA404 3.2 42.6 0.5 C1D A:CLA404 3.3 40.0 0.5 C1D A:CLA404 3.3 39.9 0.5 CD2 A:HIS198 3.3 46.5 0.5 CD2 A:HIS198 3.3 46.5 0.5 CHC A:CLA404 3.4 42.9 0.5 CHB A:CLA404 3.4 39.4 0.5 CHC A:CLA404 3.4 42.9 0.5 CHB A:CLA404 3.4 39.4 0.5 CHA A:CLA404 3.5 40.5 0.5 CHA A:CLA404 3.5 40.5 0.5 CHD A:CLA404 3.6 39.7 0.5 CHD A:CLA404 3.7 39.7 0.5 CE A:MET183 4.1 36.8 0.5 CE A:MET183 4.1 36.7 0.5 ND1 A:HIS198 4.2 40.4 0.5 C3D A:CLA404 4.3 40.6 0.5 ND1 A:HIS198 4.3 40.3 0.5 C3D A:CLA404 4.3 40.5 0.5 C2C A:CLA404 4.3 43.3 0.5 C2B A:CLA404 4.4 42.6 0.5 CG A:HIS198 4.4 45.1 0.5 C2B A:CLA404 4.4 42.6 0.5 C2C A:CLA404 4.4 43.4 0.5 C3C A:CLA404 4.4 40.5 0.5 C3B A:CLA404 4.4 43.5 0.5 CAB D:CLA402 4.4 42.4 0.5 C2A A:CLA404 4.4 48.0 0.5 CG A:HIS198 4.4 45.1 0.5 C3A A:CLA404 4.4 48.6 0.5 C3B A:CLA404 4.4 43.5 0.5 C3C A:CLA404 4.5 40.5 0.5 CAB D:CLA402 4.5 42.3 0.5 C3A A:CLA404 4.5 48.6 0.5 C2A A:CLA404 4.5 48.0 0.5 C2D A:CLA404 4.5 40.9 0.5 C2D A:CLA404 4.5 40.9 0.5 CBD A:CLA404 4.9 46.8 0.5 CBD A:CLA404 5.0 46.7 0.5

Magnesium binding site 3 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg405 b:44.7 occ:0.49 MG A:CLA405 0.0 44.7 0.5 MG A:CLA405 0.1 44.8 0.5 NC A:CLA405 2.0 42.9 0.5 ND A:CLA405 2.0 41.6 0.5 NB A:CLA405 2.0 43.1 0.5 NB A:CLA405 2.0 43.0 0.5 ND A:CLA405 2.1 41.5 0.5 NC A:CLA405 2.1 42.8 0.5 NA A:CLA405 2.1 44.8 0.5 NA A:CLA405 2.1 44.9 0.5 O A:HOH604 2.2 39.8 0.5 O A:HOH604 2.2 40.0 0.5 C1C A:CLA405 3.0 44.4 0.5 C4D A:CLA405 3.0 38.3 0.5 C4B A:CLA405 3.0 43.7 0.5 C1B A:CLA405 3.0 41.1 0.5 C4D A:CLA405 3.0 38.3 0.5 C4A A:CLA405 3.0 47.2 0.5 C1C A:CLA405 3.0 44.4 0.5 C1B A:CLA405 3.0 41.1 0.5 C4B A:CLA405 3.1 43.7 0.5 C4A A:CLA405 3.1 47.3 0.5 C4C A:CLA405 3.1 40.6 0.5 C1A A:CLA405 3.1 41.5 0.5 C4C A:CLA405 3.1 40.6 0.5 C1A A:CLA405 3.1 41.5 0.5 C1D A:CLA405 3.2 41.0 0.5 C1D A:CLA405 3.2 41.0 0.5 CHC A:CLA405 3.4 45.0 0.5 CHB A:CLA405 3.4 38.6 0.5 CHB A:CLA405 3.4 38.6 0.5 CHC A:CLA405 3.4 45.0 0.5 CHA A:CLA405 3.5 42.3 0.5 CHA A:CLA405 3.5 42.3 0.5 CHD A:CLA405 3.7 38.8 0.5 CHD A:CLA405 3.7 38.8 0.5 CBB A:PHO407 4.0 46.4 0.5 CBB A:PHO407 4.0 46.6 0.5 O A:HOH609 4.2 39.7 0.5 O A:HOH609 4.2 40.0 0.5 C3D A:CLA405 4.3 38.0 0.5 C3D A:CLA405 4.3 38.0 0.5 C2C A:CLA405 4.3 44.9 0.5 C3B A:CLA405 4.3 45.5 0.5 C2B A:CLA405 4.4 41.3 0.5 C3C A:CLA405 4.4 44.4 0.5 C3B A:CLA405 4.4 45.5 0.5 C2B A:CLA405 4.4 41.3 0.5 C2C A:CLA405 4.4 45.0 0.5 C3A A:CLA405 4.4 46.0 0.5 C3C A:CLA405 4.4 44.4 0.5 C2A A:CLA405 4.4 43.5 0.5 C3A A:CLA405 4.5 46.0 0.5 C2D A:CLA405 4.5 44.6 0.5 C2A A:CLA405 4.5 43.5 0.5 C2D A:CLA405 4.5 44.6 0.5 OG1 A:THR179 4.5 41.3 0.5 CG2 A:THR179 4.5 38.4 0.5 CG2 A:THR179 4.6 38.3 0.5 OG1 A:THR179 4.7 41.7 0.5 C19 A:PHO407 4.7 42.1 0.5 C19 A:PHO407 4.8 42.1 0.5 CBA A:CLA405 4.8 45.0 0.5 CBA A:CLA405 4.8 45.1 0.5 CBD A:CLA405 4.9 43.4 0.5 CBD A:CLA405 5.0 43.5 0.5

Magnesium binding site 4 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg405 b:44.8 occ:0.51 MG A:CLA405 0.0 44.8 0.5 MG A:CLA405 0.1 44.7 0.5 ND A:CLA405 2.0 41.6 0.5 NA A:CLA405 2.0 44.8 0.5 ND A:CLA405 2.0 41.5 0.5 NB A:CLA405 2.0 43.1 0.5 NC A:CLA405 2.1 42.9 0.5 NB A:CLA405 2.1 43.0 0.5 NA A:CLA405 2.1 44.9 0.5 NC A:CLA405 2.1 42.8 0.5 O A:HOH604 2.2 39.8 0.5 O A:HOH604 2.2 40.0 0.5 C4D A:CLA405 2.9 38.3 0.5 C4A A:CLA405 3.0 47.2 0.5 C4D A:CLA405 3.0 38.3 0.5 C1A A:CLA405 3.0 41.5 0.5 C1C A:CLA405 3.0 44.4 0.5 C4A A:CLA405 3.0 47.3 0.5 C1B A:CLA405 3.0 41.1 0.5 C1B A:CLA405 3.0 41.1 0.5 C4B A:CLA405 3.1 43.7 0.5 C1A A:CLA405 3.1 41.5 0.5 C4B A:CLA405 3.1 43.7 0.5 C1C A:CLA405 3.1 44.4 0.5 C4C A:CLA405 3.1 40.6 0.5 C4C A:CLA405 3.2 40.6 0.5 C1D A:CLA405 3.2 41.0 0.5 C1D A:CLA405 3.2 41.0 0.5 CHB A:CLA405 3.4 38.6 0.5 CHB A:CLA405 3.4 38.6 0.5 CHC A:CLA405 3.4 45.0 0.5 CHA A:CLA405 3.4 42.3 0.5 CHC A:CLA405 3.5 45.0 0.5 CHA A:CLA405 3.5 42.3 0.5 CHD A:CLA405 3.7 38.8 0.5 CHD A:CLA405 3.7 38.8 0.5 CBB A:PHO407 3.9 46.4 0.5 CBB A:PHO407 4.0 46.6 0.5 O A:HOH609 4.2 39.7 0.5 C3D A:CLA405 4.2 38.0 0.5 O A:HOH609 4.2 40.0 0.5 C3D A:CLA405 4.3 38.0 0.5 C3A A:CLA405 4.3 46.0 0.5 C2C A:CLA405 4.4 44.9 0.5 C2B A:CLA405 4.4 41.3 0.5 C2A A:CLA405 4.4 43.5 0.5 C3B A:CLA405 4.4 45.5 0.5 C2B A:CLA405 4.4 41.3 0.5 C3A A:CLA405 4.4 46.0 0.5 C3B A:CLA405 4.4 45.5 0.5 C3C A:CLA405 4.4 44.4 0.5 C2A A:CLA405 4.4 43.5 0.5 C2C A:CLA405 4.4 45.0 0.5 C3C A:CLA405 4.5 44.4 0.5 C2D A:CLA405 4.5 44.6 0.5 C2D A:CLA405 4.5 44.6 0.5 CG2 A:THR179 4.6 38.4 0.5 OG1 A:THR179 4.6 41.3 0.5 CG2 A:THR179 4.6 38.3 0.5 CBA A:CLA405 4.7 45.0 0.5 CBA A:CLA405 4.7 45.1 0.5 OG1 A:THR179 4.8 41.7 0.5 C19 A:PHO407 4.8 42.1 0.5 C19 A:PHO407 4.8 42.1 0.5 CBD A:CLA405 4.9 43.4 0.5 CBD A:CLA405 4.9 43.5 0.5 CMA A:CLA405 5.0 43.0 0.5

Magnesium binding site 5 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg406 b:46.3 occ:0.49 MG A:CLA406 0.0 46.3 0.5 MG A:CLA406 0.1 46.3 0.5 NC A:CLA406 2.0 42.8 0.5 ND A:CLA406 2.0 47.4 0.5 ND A:CLA406 2.0 47.4 0.5 NC A:CLA406 2.1 42.8 0.5 NB A:CLA406 2.1 42.6 0.5 NB A:CLA406 2.1 42.6 0.5 NA A:CLA406 2.1 46.3 0.5 NA A:CLA406 2.1 46.3 0.5 O A:HOH628 2.2 44.6 1.0 C4D A:CLA406 3.0 42.8 0.5 C1C A:CLA406 3.0 42.7 0.5 C4D A:CLA406 3.0 42.8 0.5 C1C A:CLA406 3.0 42.7 0.5 C4B A:CLA406 3.0 43.6 0.5 C4B A:CLA406 3.0 43.7 0.5 C4A A:CLA406 3.0 43.7 0.5 C1B A:CLA406 3.1 45.0 0.5 C1A A:CLA406 3.1 46.4 0.5 C1B A:CLA406 3.1 45.0 0.5 C4A A:CLA406 3.1 43.7 0.5 C4C A:CLA406 3.1 40.4 0.5 C1A A:CLA406 3.1 46.4 0.5 C4C A:CLA406 3.1 40.4 0.5 C1D A:CLA406 3.2 42.5 0.5 C1D A:CLA406 3.2 42.5 0.5 CHC A:CLA406 3.4 41.4 0.5 CHC A:CLA406 3.4 41.4 0.5 CHB A:CLA406 3.4 43.9 0.5 CHB A:CLA406 3.4 43.8 0.5 CHA A:CLA406 3.4 44.6 0.5 CHA A:CLA406 3.5 44.5 0.5 CHD A:CLA406 3.7 42.8 0.5 CHD A:CLA406 3.7 42.8 0.5 CBB A:PHO416 4.0 47.0 0.5 CBB A:PHO416 4.0 47.0 0.5 O A:HOH619 4.2 43.7 1.0 C3D A:CLA406 4.2 42.0 0.5 C3D A:CLA406 4.2 42.0 0.5 C2C A:CLA406 4.3 44.8 0.5 C2C A:CLA406 4.4 44.8 0.5 C3B A:CLA406 4.4 49.1 0.5 C3C A:CLA406 4.4 44.7 0.5 C3B A:CLA406 4.4 49.1 0.5 C2B A:CLA406 4.4 45.4 0.5 C2B A:CLA406 4.4 45.4 0.5 C2A A:CLA406 4.4 48.3 0.5 C3C A:CLA406 4.4 44.7 0.5 C3A A:CLA406 4.4 47.1 0.5 C3A A:CLA406 4.4 47.1 0.5 C2A A:CLA406 4.5 48.3 0.5 C2D A:CLA406 4.5 47.0 0.5 C2D A:CLA406 4.5 47.0 0.5 C20 A:PHO416 4.7 44.8 0.5 CG2 D:ILE178 4.7 42.0 1.0 C20 A:PHO416 4.8 44.7 0.5 CBA A:CLA406 4.8 51.0 0.5 CBA A:CLA406 4.9 51.1 0.5 CBD A:CLA406 4.9 48.3 0.5 CBD A:CLA406 4.9 48.2 0.5

Magnesium binding site 6 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg406 b:46.3 occ:0.51 MG A:CLA406 0.0 46.3 0.5 MG A:CLA406 0.1 46.3 0.5 NA A:CLA406 2.0 46.3 0.5 ND A:CLA406 2.0 47.4 0.5 NB A:CLA406 2.0 42.6 0.5 NB A:CLA406 2.0 42.6 0.5 ND A:CLA406 2.1 47.4 0.5 NC A:CLA406 2.1 42.8 0.5 NA A:CLA406 2.1 46.3 0.5 NC A:CLA406 2.1 42.8 0.5 O A:HOH628 2.2 44.6 1.0 C4D A:CLA406 3.0 42.8 0.5 C4D A:CLA406 3.0 42.8 0.5 C4A A:CLA406 3.0 43.7 0.5 C1C A:CLA406 3.0 42.7 0.5 C1A A:CLA406 3.0 46.4 0.5 C1B A:CLA406 3.0 45.0 0.5 C4A A:CLA406 3.0 43.7 0.5 C1B A:CLA406 3.0 45.0 0.5 C4B A:CLA406 3.0 43.6 0.5 C1C A:CLA406 3.0 42.7 0.5 C4B A:CLA406 3.0 43.7 0.5 C1A A:CLA406 3.1 46.4 0.5 C4C A:CLA406 3.1 40.4 0.5 C4C A:CLA406 3.2 40.4 0.5 C1D A:CLA406 3.3 42.5 0.5 C1D A:CLA406 3.3 42.5 0.5 CHB A:CLA406 3.4 43.9 0.5 CHC A:CLA406 3.4 41.4 0.5 CHC A:CLA406 3.4 41.4 0.5 CHB A:CLA406 3.4 43.8 0.5 CHA A:CLA406 3.4 44.6 0.5 CHA A:CLA406 3.4 44.5 0.5 CHD A:CLA406 3.7 42.8 0.5 CHD A:CLA406 3.7 42.8 0.5 CBB A:PHO416 4.0 47.0 0.5 CBB A:PHO416 4.0 47.0 0.5 O A:HOH619 4.2 43.7 1.0 C3D A:CLA406 4.2 42.0 0.5 C3D A:CLA406 4.2 42.0 0.5 C3A A:CLA406 4.4 47.1 0.5 C2A A:CLA406 4.4 48.3 0.5 C2B A:CLA406 4.4 45.4 0.5 C2C A:CLA406 4.4 44.8 0.5 C3B A:CLA406 4.4 49.1 0.5 C3B A:CLA406 4.4 49.1 0.5 C2B A:CLA406 4.4 45.4 0.5 C3A A:CLA406 4.4 47.1 0.5 C2C A:CLA406 4.4 44.8 0.5 C2A A:CLA406 4.4 48.3 0.5 C3C A:CLA406 4.4 44.7 0.5 C3C A:CLA406 4.5 44.7 0.5 C2D A:CLA406 4.5 47.0 0.5 C2D A:CLA406 4.5 47.0 0.5 C20 A:PHO416 4.7 44.8 0.5 CG2 D:ILE178 4.7 42.0 1.0 CBA A:CLA406 4.8 51.0 0.5 CBA A:CLA406 4.8 51.1 0.5 C20 A:PHO416 4.8 44.7 0.5 CBD A:CLA406 4.9 48.3 0.5 CBD A:CLA406 4.9 48.2 0.5

Magnesium binding site 7 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg408 b:50.6 occ:1.00 MG A:CLA408 0.0 50.6 1.0 ND A:CLA408 2.0 48.8 1.0 NB A:CLA408 2.0 53.1 1.0 NA A:CLA408 2.1 56.7 1.0 NC A:CLA408 2.1 50.9 1.0 NE2 A:HIS118 2.2 48.1 1.0 C4D A:CLA408 3.0 50.8 1.0 CE1 A:HIS118 3.0 51.2 1.0 C4A A:CLA408 3.0 55.4 1.0 C4B A:CLA408 3.0 47.0 1.0 C1C A:CLA408 3.0 45.0 1.0 C1A A:CLA408 3.1 57.2 1.0 C1B A:CLA408 3.1 50.7 1.0 C4C A:CLA408 3.1 43.1 1.0 C1D A:CLA408 3.2 46.5 1.0 CD2 A:HIS118 3.4 47.9 1.0 CHB A:CLA408 3.4 47.2 1.0 CHC A:CLA408 3.4 48.0 1.0 CHA A:CLA408 3.4 49.7 1.0 CHD A:CLA408 3.7 53.3 1.0 ND1 A:HIS118 4.2 43.5 1.0 C3D A:CLA408 4.2 47.8 1.0 C3B A:CLA408 4.4 50.7 1.0 C3A A:CLA408 4.4 60.3 1.0 C2C A:CLA408 4.4 49.9 1.0 C2B A:CLA408 4.4 44.6 1.0 CG A:HIS118 4.4 49.1 1.0 C2A A:CLA408 4.4 52.4 1.0 C3C A:CLA408 4.4 55.7 1.0 CG1 I:VAL8 4.4 50.8 1.0 C2D A:CLA408 4.5 48.1 1.0 CG2 I:VAL12 4.5 55.1 1.0 CBD A:CLA408 4.9 46.4 1.0

Magnesium binding site 8 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg601 b:72.5 occ:1.00 MG B:CLA601 0.0 72.5 1.0 NB B:CLA601 2.0 68.1 1.0 ND B:CLA601 2.0 69.2 1.0 NC B:CLA601 2.1 62.9 1.0 NA B:CLA601 2.1 79.6 1.0 O B:HOH759 2.2 64.4 1.0 C4D B:CLA601 3.0 70.5 1.0 C1C B:CLA601 3.0 60.5 1.0 C4B B:CLA601 3.0 65.3 1.0 C1B B:CLA601 3.1 58.4 1.0 C4A B:CLA601 3.1 72.3 1.0 C1A B:CLA601 3.1 75.4 1.0 C4C B:CLA601 3.1 59.0 1.0 C1D B:CLA601 3.3 69.5 1.0 CHC B:CLA601 3.4 61.1 1.0 CHB B:CLA601 3.4 69.5 1.0 CHA B:CLA601 3.5 70.4 1.0 CHD B:CLA601 3.7 65.2 1.0 C10 B:CLA601 4.0 87.9 1.0 C12 B:CLA601 4.1 76.9 1.0 C3D B:CLA601 4.3 72.9 1.0 C3B B:CLA601 4.3 58.4 1.0 O B:TRP185 4.3 67.0 1.0 C2C B:CLA601 4.4 67.0 1.0 C2B B:CLA601 4.4 65.8 1.0 C3A B:CLA601 4.4 78.0 1.0 C2A B:CLA601 4.4 80.5 1.0 C3C B:CLA601 4.4 65.4 1.0 CE2 B:PHE190 4.5 61.2 1.0 C2D B:CLA601 4.5 70.6 1.0 C11 B:CLA601 4.6 84.0 1.0 CBB B:CLA602 4.6 63.1 1.0 C8 B:CLA601 4.7 82.2 1.0 CZ B:PHE190 4.8 58.5 1.0 CBD B:CLA601 4.9 77.1 1.0 C7 B:CLA601 5.0 97.2 1.0

Magnesium binding site 9 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:54.0 occ:1.00 MG B:CLA602 0.0 54.0 1.0 ND B:CLA602 2.0 56.8 1.0 NB B:CLA602 2.0 55.5 1.0 NA B:CLA602 2.1 57.7 1.0 NC B:CLA602 2.1 60.0 1.0 ND1 B:HIS201 2.2 55.9 1.0 C4D B:CLA602 3.0 49.0 1.0 C4B B:CLA602 3.0 57.3 1.0 C4A B:CLA602 3.0 58.5 1.0 C1C B:CLA602 3.0 56.0 1.0 C1B B:CLA602 3.0 60.7 1.0 CE1 B:HIS201 3.1 57.6 1.0 C1A B:CLA602 3.1 52.7 1.0 C4C B:CLA602 3.2 52.2 1.0 C1D B:CLA602 3.3 51.0 1.0 CG B:HIS201 3.3 58.0 1.0 CHB B:CLA602 3.4 52.7 1.0 CHC B:CLA602 3.4 53.1 1.0 CHA B:CLA602 3.5 53.6 1.0 CHD B:CLA602 3.7 51.5 1.0 CB B:HIS201 3.7 55.6 1.0 CZ H:PHE41 4.0 62.9 1.0 NE2 B:HIS201 4.2 54.0 1.0 C3D B:CLA602 4.3 53.2 1.0 C3B B:CLA602 4.3 61.1 1.0 CD2 B:HIS201 4.4 48.7 1.0 C3A B:CLA602 4.4 62.5 1.0 C2B B:CLA602 4.4 58.9 1.0 C2A B:CLA602 4.4 53.5 1.0 C2C B:CLA602 4.4 53.7 1.0 CA B:HIS201 4.4 55.0 1.0 CE2 H:PHE41 4.4 66.0 1.0 C3C B:CLA602 4.4 54.9 1.0 C2D B:CLA602 4.5 48.3 1.0 CE1 B:PHE190 4.9 57.4 1.0 CMA B:CLA602 4.9 51.4 1.0 CBD B:CLA602 4.9 49.5 1.0

Magnesium binding site 10 out of 80 in the Xfel Structure of Cyanobacterial Photosystem II Following Two Flashes (2F) 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 Two Flashes (2F) with A 1-Microsecond Delay within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg603 b:49.8 occ:1.00 MG B:CLA603 0.0 49.8 1.0 NB B:CLA603 2.0 56.3 1.0 ND B:CLA603 2.0 53.0 1.0 NC B:CLA603 2.1 49.8 1.0 NA B:CLA603 2.1 52.8 1.0 NE2 B:HIS202 2.2 48.4 1.0 C4D B:CLA603 3.0 53.8 1.0 C1B B:CLA603 3.0 58.1 1.0 C1C B:CLA603 3.0 54.2 1.0 C4B B:CLA603 3.0 56.3 1.0 C4A B:CLA603 3.0 51.3 1.0 C1A B:CLA603 3.1 48.2 1.0 CD2 B:HIS202 3.1 45.1 1.0 C4C B:CLA603 3.1 47.8 1.0 CE1 B:HIS202 3.2 56.7 1.0 C1D B:CLA603 3.3 54.3 1.0 CHB B:CLA603 3.4 52.1 1.0 CHC B:CLA603 3.4 47.2 1.0 CHA B:CLA603 3.5 48.8 1.0 CHD B:CLA603 3.7 48.4 1.0 CG B:HIS202 4.3 57.7 1.0 C3D B:CLA603 4.3 52.1 1.0 ND1 B:HIS202 4.3 46.8 1.0 C3B B:CLA603 4.3 54.9 1.0 C2B B:CLA603 4.4 52.8 1.0 C6 B:CLA605 4.4 62.9 1.0 C2C B:CLA603 4.4 53.5 1.0 C2A B:CLA603 4.4 55.0 1.0 C3A B:CLA603 4.4 50.9 1.0 C3C B:CLA603 4.4 53.5 1.0 C2D B:CLA603 4.5 59.6 1.0 C7 B:CLA605 4.8 63.4 1.0 NE2 B:HIS201 4.8 54.0 1.0 C9 B:CLA605 4.9 64.0 1.0 C4 B:CLA605 4.9 54.6 1.0 CBD B:CLA603 4.9 58.4 1.0 CBA B:CLA603 5.0 42.6 1.0 CD2 B:HIS201 5.0 48.7 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