Magnesium in PDB 8asp: Rcii/Psi Complex, Focused Refinement of Psi

All present enzymatic activity of Rcii/Psi Complex, Focused Refinement of Psi:
1.97.1.12;

The structure of Rcii/Psi Complex, Focused Refinement of Psi 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 - 96;

Binding sites:

The binding sites of Magnesium atom in the Rcii/Psi Complex, Focused Refinement of Psi (pdb code 8asp). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 96 binding sites of Magnesium where determined in the Rcii/Psi Complex, Focused Refinement of Psi, PDB code: 8asp:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg801 b:39.9 occ:1.00 MG a:CL0801 0.0 39.9 1.0 NE2 a:HIS676 1.9 49.4 1.0 NB a:CL0801 2.0 38.9 1.0 ND a:CL0801 2.0 36.6 1.0 NA a:CL0801 2.1 31.3 1.0 NC a:CL0801 2.1 36.4 1.0 CE1 a:HIS676 2.7 44.0 1.0 C4D a:CL0801 2.9 36.5 1.0 C1B a:CL0801 3.0 33.4 1.0 C4A a:CL0801 3.0 24.6 1.0 CD2 a:HIS676 3.0 47.8 1.0 C4B a:CL0801 3.0 34.0 1.0 C1C a:CL0801 3.1 38.7 1.0 C4C a:CL0801 3.1 36.2 1.0 C1A a:CL0801 3.1 32.9 1.0 C1D a:CL0801 3.2 41.9 1.0 CHB a:CL0801 3.4 31.9 1.0 CHC a:CL0801 3.4 36.1 1.0 CHA a:CL0801 3.5 33.1 1.0 CHD a:CL0801 3.5 39.0 1.0 CAB b:CLA803 3.6 33.8 1.0 ND1 a:HIS676 3.9 40.2 1.0 CG a:HIS676 4.1 37.7 1.0 C3B b:CLA803 4.1 33.5 1.0 C3D a:CL0801 4.3 41.0 1.0 C2B a:CL0801 4.3 41.4 1.0 C3B a:CL0801 4.3 37.4 1.0 C2C a:CL0801 4.3 39.5 1.0 C2D a:CL0801 4.4 46.6 1.0 C3C a:CL0801 4.4 38.8 1.0 C3A a:CL0801 4.4 31.4 1.0 CHC b:CLA803 4.4 29.9 1.0 CBB b:CLA803 4.4 32.5 1.0 C2A a:CL0801 4.4 33.3 1.0 C4B b:CLA803 4.5 33.6 1.0 CZ b:PHE617 4.7 50.2 1.0 C2B b:CLA803 4.9 40.3 1.0 CBD a:CL0801 4.9 32.6 1.0 CZ a:PHE672 5.0 34.1 1.0

Magnesium binding site 2 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg802 b:67.5 occ:1.00 MG a:CLA802 0.0 67.5 1.0 NB a:CLA802 2.0 54.4 1.0 ND a:CLA802 2.0 49.4 1.0 NA a:CLA802 2.1 47.0 1.0 NC a:CLA802 2.1 57.0 1.0 C4D a:CLA802 2.9 46.6 1.0 C1B a:CLA802 3.0 50.2 1.0 C4A a:CLA802 3.0 43.4 1.0 C4B a:CLA802 3.1 48.1 1.0 C1C a:CLA802 3.1 44.3 1.0 C4C a:CLA802 3.1 53.4 1.0 C1A a:CLA802 3.1 45.8 1.0 C1D a:CLA802 3.1 41.8 1.0 CE a:MET684 3.3 55.9 1.0 CHB a:CLA802 3.4 49.3 1.0 CHC a:CLA802 3.4 40.1 1.0 CHA a:CLA802 3.5 45.3 1.0 CHD a:CLA802 3.5 42.0 1.0 SD a:MET684 3.5 62.4 1.0 NE1 b:TRP579 3.6 38.1 1.0 CZ2 b:TRP579 3.8 41.3 1.0 CE2 b:TRP579 4.1 45.8 1.0 CG a:MET684 4.2 40.9 1.0 C3D a:CLA802 4.3 52.1 1.0 C2B a:CLA802 4.3 48.5 1.0 C3B a:CLA802 4.3 53.4 1.0 C2C a:CLA802 4.3 49.8 1.0 C2D a:CLA802 4.4 45.9 1.0 C3C a:CLA802 4.4 50.2 1.0 C3A a:CLA802 4.4 47.7 1.0 C2A a:CLA802 4.4 46.5 1.0 CB a:MET684 4.8 51.3 1.0 CD1 b:TRP579 4.8 35.7 1.0 CBD a:CLA802 4.9 46.4 1.0

Magnesium binding site 3 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg803 b:65.9 occ:1.00 MG a:CLA803 0.0 65.9 1.0 NE2 a:HIS52 1.9 74.6 1.0 NB a:CLA803 2.0 61.4 1.0 ND a:CLA803 2.0 58.9 1.0 NC a:CLA803 2.1 55.7 1.0 NA a:CLA803 2.1 62.4 1.0 CE1 a:HIS52 2.6 70.3 1.0 C4D a:CLA803 2.9 56.1 1.0 C1B a:CLA803 3.0 55.0 1.0 C4A a:CLA803 3.0 63.6 1.0 C4B a:CLA803 3.1 56.8 1.0 C1C a:CLA803 3.1 58.4 1.0 C4C a:CLA803 3.1 55.7 1.0 CD2 a:HIS52 3.1 67.5 1.0 C1A a:CLA803 3.1 54.0 1.0 C1D a:CLA803 3.2 60.2 1.0 CHB a:CLA803 3.4 57.8 1.0 CHC a:CLA803 3.4 55.8 1.0 CHA a:CLA803 3.5 51.1 1.0 CHD a:CLA803 3.5 57.3 1.0 CG j:PRO12 3.8 66.5 1.0 ND1 a:HIS52 3.8 62.6 1.0 CB j:PRO12 3.8 63.8 1.0 CG a:HIS52 4.1 58.1 1.0 C3D a:CLA803 4.3 59.5 1.0 C2B a:CLA803 4.3 61.6 1.0 C3B a:CLA803 4.3 56.5 1.0 C2C a:CLA803 4.3 62.8 1.0 C3C a:CLA803 4.4 60.7 1.0 C2D a:CLA803 4.4 59.2 1.0 C3A a:CLA803 4.4 65.9 1.0 C2A a:CLA803 4.5 58.3 1.0 CD j:PRO12 4.5 66.7 1.0 CBD a:CLA803 4.9 55.6 1.0

Magnesium binding site 4 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg804 b:65.4 occ:1.00 MG a:CLA804 0.0 65.4 1.0 NE2 a:HIS56 1.9 75.7 1.0 NB a:CLA804 2.0 55.1 1.0 ND a:CLA804 2.0 60.5 1.0 NC a:CLA804 2.1 61.4 1.0 NA a:CLA804 2.1 55.0 1.0 CE1 a:HIS56 2.4 72.6 1.0 C4D a:CLA804 2.9 54.5 1.0 C1B a:CLA804 3.0 58.6 1.0 C4A a:CLA804 3.0 49.4 1.0 C4B a:CLA804 3.1 54.8 1.0 C1C a:CLA804 3.1 64.3 1.0 C4C a:CLA804 3.1 51.0 1.0 C1A a:CLA804 3.2 56.8 1.0 C1D a:CLA804 3.2 55.3 1.0 CD2 a:HIS56 3.2 70.4 1.0 C9 a:CLA811 3.3 71.3 1.0 CHB a:CLA804 3.4 49.5 1.0 CHC a:CLA804 3.4 60.7 1.0 CHA a:CLA804 3.5 55.4 1.0 C8 a:CLA811 3.5 67.1 1.0 CHD a:CLA804 3.5 58.2 1.0 ND1 a:HIS56 3.7 57.5 1.0 CG a:HIS56 4.1 59.6 1.0 C10 a:CLA811 4.1 62.1 1.0 C3D a:CLA804 4.3 56.4 1.0 C2B a:CLA804 4.3 57.8 1.0 C3B a:CLA804 4.3 56.3 1.0 C2C a:CLA804 4.3 59.3 1.0 C2D a:CLA804 4.4 56.5 1.0 C3C a:CLA804 4.4 54.3 1.0 C3A a:CLA804 4.4 58.2 1.0 C2A a:CLA804 4.5 59.0 1.0 C7 a:CLA811 4.8 66.0 1.0 CBD a:CLA804 4.9 53.4 1.0

Magnesium binding site 5 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg805 b:59.8 occ:1.00 MG a:CLA805 0.0 59.8 1.0 NE2 a:HIS76 1.9 54.5 1.0 NB a:CLA805 2.0 44.1 1.0 ND a:CLA805 2.0 52.8 1.0 NA a:CLA805 2.1 49.0 1.0 NC a:CLA805 2.1 48.1 1.0 CD2 a:HIS76 2.8 47.5 1.0 CE1 a:HIS76 2.9 56.6 1.0 C4D a:CLA805 2.9 41.1 1.0 C1B a:CLA805 3.0 41.5 1.0 CMB a:CLA830 3.0 51.3 1.0 C4A a:CLA805 3.0 50.4 1.0 C4B a:CLA805 3.1 45.7 1.0 C1C a:CLA805 3.1 49.5 1.0 C1A a:CLA805 3.1 42.5 1.0 C4C a:CLA805 3.1 47.9 1.0 C1D a:CLA805 3.2 50.5 1.0 CHB a:CLA805 3.4 50.1 1.0 CHC a:CLA805 3.4 44.8 1.0 CHA a:CLA805 3.5 44.9 1.0 CHD a:CLA805 3.5 53.1 1.0 CG a:HIS76 3.9 36.0 1.0 ND1 a:HIS76 3.9 40.5 1.0 C3D a:CLA805 4.3 37.2 1.0 C2B a:CLA805 4.3 41.0 1.0 C3B a:CLA805 4.3 42.6 1.0 C2C a:CLA805 4.3 51.1 1.0 C2D a:CLA805 4.4 37.1 1.0 C3C a:CLA805 4.4 45.8 1.0 C3A a:CLA805 4.4 47.7 1.0 C2B a:CLA830 4.4 49.2 1.0 C2A a:CLA805 4.5 39.0 1.0 CG2 a:ILE72 4.6 51.1 1.0 CBB a:CLA830 4.7 49.2 1.0 CBD a:CLA805 4.9 45.7 1.0

Magnesium binding site 6 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg806 b:56.8 occ:1.00 MG a:CLA806 0.0 56.8 1.0 NE2 a:HIS79 1.9 59.3 1.0 NB a:CLA806 2.0 46.4 1.0 ND a:CLA806 2.0 55.0 1.0 NC a:CLA806 2.1 50.8 1.0 NA a:CLA806 2.1 42.3 1.0 CE1 a:HIS79 2.6 52.0 1.0 C4D a:CLA806 2.9 49.1 1.0 C1B a:CLA806 3.0 49.8 1.0 C4A a:CLA806 3.0 44.0 1.0 C4B a:CLA806 3.1 45.0 1.0 C1C a:CLA806 3.1 49.8 1.0 CD2 a:HIS79 3.1 53.3 1.0 C4C a:CLA806 3.1 49.3 1.0 C1A a:CLA806 3.1 42.5 1.0 C1D a:CLA806 3.2 46.9 1.0 CHB a:CLA806 3.4 54.0 1.0 CHC a:CLA806 3.4 44.1 1.0 CHA a:CLA806 3.5 50.4 1.0 CHD a:CLA806 3.5 43.8 1.0 ND1 a:HIS79 3.8 34.9 1.0 C16 a:CLA806 3.9 47.5 1.0 CG a:HIS79 4.1 41.0 1.0 C3D a:CLA806 4.3 43.8 1.0 C2B a:CLA806 4.3 48.6 1.0 C3B a:CLA806 4.3 54.3 1.0 C2C a:CLA806 4.3 48.4 1.0 C3C a:CLA806 4.4 55.9 1.0 C2D a:CLA806 4.4 45.4 1.0 C17 a:CLA806 4.4 47.1 1.0 C3A a:CLA806 4.4 45.4 1.0 C2A a:CLA806 4.5 41.0 1.0 C18 a:CLA806 4.5 55.9 1.0 C15 a:CLA806 4.7 50.7 1.0 CBD a:CLA806 4.9 54.7 1.0 CMA a:CLA805 4.9 47.6 1.0

Magnesium binding site 7 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg807 b:81.2 occ:1.00 MG a:CLA807 0.0 81.2 1.0 NE2 a:HIS93 1.9 64.3 1.0 NB a:CLA807 2.0 62.1 1.0 ND a:CLA807 2.0 63.6 1.0 NC a:CLA807 2.1 67.1 1.0 NA a:CLA807 2.1 65.2 1.0 CE1 a:HIS93 2.5 63.9 1.0 C4D a:CLA807 2.9 58.2 1.0 C1B a:CLA807 3.0 66.5 1.0 C4A a:CLA807 3.0 63.3 1.0 C4B a:CLA807 3.1 57.5 1.0 C1C a:CLA807 3.1 59.9 1.0 C4C a:CLA807 3.1 64.4 1.0 C1A a:CLA807 3.2 65.3 1.0 C1D a:CLA807 3.2 59.5 1.0 CD2 a:HIS93 3.2 60.5 1.0 CHB a:CLA807 3.4 68.2 1.0 CHC a:CLA807 3.4 55.3 1.0 CHA a:CLA807 3.5 61.6 1.0 CHD a:CLA807 3.5 63.4 1.0 ND1 a:HIS93 3.7 56.3 1.0 C36 a:BCR848 3.8 75.2 1.0 C16 a:BCR848 3.9 74.1 1.0 CG a:HIS93 4.1 52.6 1.0 C18 a:BCR848 4.2 77.0 1.0 C3D a:CLA807 4.3 58.9 1.0 C2B a:CLA807 4.3 65.1 1.0 C3B a:CLA807 4.3 66.5 1.0 C2C a:CLA807 4.3 61.0 1.0 C17 a:BCR848 4.4 76.3 1.0 C2D a:CLA807 4.4 59.5 1.0 C3C a:CLA807 4.4 64.7 1.0 C3A a:CLA807 4.4 62.1 1.0 C2A a:CLA807 4.5 65.3 1.0 O1A a:CLA807 4.5 82.7 1.0 C15 a:BCR848 4.9 75.7 1.0 CBD a:CLA807 4.9 62.6 1.0

Magnesium binding site 8 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg808 b:70.3 occ:1.00 MG a:CLA808 0.0 70.3 1.0 NB a:CLA808 2.0 57.0 1.0 ND a:CLA808 2.0 53.3 1.0 NC a:CLA808 2.1 50.7 1.0 NA a:CLA808 2.1 59.0 1.0 OE1 a:GLN115 2.2 64.7 1.0 C4D a:CLA808 2.9 49.8 1.0 C1B a:CLA808 3.0 50.9 1.0 C4A a:CLA808 3.0 55.5 1.0 C4B a:CLA808 3.1 48.5 1.0 C1C a:CLA808 3.1 47.8 1.0 CD a:GLN115 3.1 57.9 1.0 C4C a:CLA808 3.1 53.3 1.0 C1A a:CLA808 3.1 52.2 1.0 C1D a:CLA808 3.2 49.8 1.0 NE2 a:GLN115 3.4 62.3 1.0 CHB a:CLA808 3.4 51.6 1.0 CHC a:CLA808 3.4 48.6 1.0 CHA a:CLA808 3.5 46.1 1.0 CHD a:CLA808 3.5 52.6 1.0 C5 a:CLA828 4.1 48.5 1.0 C3D a:CLA808 4.3 49.2 1.0 C2B a:CLA808 4.3 46.2 1.0 C3B a:CLA808 4.3 48.4 1.0 C2C a:CLA808 4.3 52.0 1.0 C2 a:CLA828 4.3 49.2 1.0 C2D a:CLA808 4.4 48.3 1.0 C3C a:CLA808 4.4 52.4 1.0 C3A a:CLA808 4.4 53.8 1.0 C2A a:CLA808 4.4 56.0 1.0 C3 a:CLA828 4.5 49.0 1.0 CG a:GLN115 4.5 51.8 1.0 CBD a:CLA808 4.9 51.1 1.0

Magnesium binding site 9 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg809 b:62.2 occ:1.00 MG a:CLA809 0.0 62.2 1.0 NB a:CLA809 2.0 55.9 1.0 ND a:CLA809 2.0 54.8 1.0 NC a:CLA809 2.1 54.4 1.0 NA a:CLA809 2.1 54.9 1.0 OE1 a:GLN123 2.1 57.5 1.0 C4D a:CLA809 2.9 52.8 1.0 C1B a:CLA809 3.0 54.4 1.0 C4A a:CLA809 3.0 58.4 1.0 C4B a:CLA809 3.1 55.8 1.0 C1C a:CLA809 3.1 56.6 1.0 C4C a:CLA809 3.1 51.0 1.0 C1A a:CLA809 3.2 52.3 1.0 C1D a:CLA809 3.2 56.6 1.0 CD a:GLN123 3.3 46.6 1.0 CHB a:CLA809 3.4 62.0 1.0 CHC a:CLA809 3.4 59.9 1.0 CHA a:CLA809 3.5 50.0 1.0 CHD a:CLA809 3.5 52.6 1.0 C14 a:CLA828 3.6 53.0 1.0 NE2 a:GLN123 3.9 45.8 1.0 C3D a:CLA809 4.3 54.6 1.0 C2B a:CLA809 4.3 54.8 1.0 C3B a:CLA809 4.3 54.5 1.0 C2C a:CLA809 4.3 54.8 1.0 C2D a:CLA809 4.4 53.8 1.0 C3C a:CLA809 4.4 51.0 1.0 C3A a:CLA809 4.4 54.7 1.0 C2A a:CLA809 4.5 55.5 1.0 CG a:GLN123 4.5 42.8 1.0 CB a:GLN123 4.8 45.6 1.0 CBD a:CLA809 4.9 49.2 1.0 C16 a:CLA828 5.0 48.2 1.0

Magnesium binding site 10 out of 96 in the Rcii/Psi Complex, Focused Refinement of Psi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Rcii/Psi Complex, Focused Refinement of Psi within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg810 b:70.2 occ:1.00 MG a:CLA810 0.0 70.2 1.0 NE2 a:HIS179 1.9 73.7 1.0 NB a:CLA810 2.0 55.8 1.0 ND a:CLA810 2.0 66.2 1.0 NA a:CLA810 2.1 63.1 1.0 NC a:CLA810 2.1 59.4 1.0 CE1 a:HIS179 2.6 69.8 1.0 C4D a:CLA810 2.9 61.3 1.0 C1B a:CLA810 3.0 55.4 1.0 C4A a:CLA810 3.0 63.5 1.0 C4B a:CLA810 3.1 57.9 1.0 C1C a:CLA810 3.1 59.2 1.0 CD2 a:HIS179 3.1 66.7 1.0 C4C a:CLA810 3.1 60.3 1.0 C1D a:CLA810 3.2 60.3 1.0 C1A a:CLA810 3.2 51.5 1.0 CHB a:CLA810 3.4 59.2 1.0 CHC a:CLA810 3.4 58.6 1.0 CHA a:CLA810 3.5 55.4 1.0 CHD a:CLA810 3.5 56.8 1.0 ND1 a:HIS179 3.8 53.5 1.0 CG a:HIS179 4.1 56.9 1.0 C3D a:CLA810 4.3 60.2 1.0 C2B a:CLA810 4.3 64.0 1.0 C3B a:CLA810 4.3 63.2 1.0 C2C a:CLA810 4.3 60.0 1.0 C2D a:CLA810 4.4 61.7 1.0 C3C a:CLA810 4.4 62.5 1.0 C3A a:CLA810 4.4 64.0 1.0 C2A a:CLA810 4.5 57.5 1.0 CBD a:CLA810 4.9 61.8 1.0

Z.Zhao, I.Vercellino, J.Knoppova, R.Sobotka, J.W.Murray, P.J.Nixon, L.A.Sazanov, J.Komenda. The YCF48 Accessory Factor Occupies the Site of the Oxygen-Evolving Manganese Cluster During Photosystem II Biogenesis. Nat Commun V. 14 4681 2023.
ISSN: ESSN 2041-1723
PubMed: 37542031
DOI: 10.1038/S41467-023-40388-6