Magnesium in PDB 8c5x: Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv

The structure of Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c5x was solved by A.Gabdulkhakov, G.Selikhanov, T.Fufina, L.Vasilieva, A.Atamas, D.Uhimchuk, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.89 / 2.60
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	139.85, 139.85, 186.56, 90, 90, 120
R / Rfree (%)	18.6 / 20.7

The structure of Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv also contains other interesting chemical elements:

Iron	(Fe)	1 atom
Potassium	(K)	1 atom

The binding sites of Magnesium atom in the Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv (pdb code 8c5x). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c5x:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg301 b:49.0 occ:1.00 MG L:BCL301 0.0 49.0 1.0 NE2 L:HIS173 1.9 47.2 1.0 ND L:BCL301 2.0 47.8 1.0 NB L:BCL301 2.1 47.1 1.0 NC L:BCL301 2.2 51.9 1.0 NA L:BCL301 2.2 47.2 1.0 CE1 L:HIS173 2.8 42.8 1.0 C4D L:BCL301 3.0 46.6 1.0 CD2 L:HIS173 3.1 40.5 1.0 C4B L:BCL301 3.1 48.4 1.0 C1B L:BCL301 3.1 46.4 1.0 C1C L:BCL301 3.2 52.9 1.0 C4A L:BCL301 3.2 45.6 1.0 C1D L:BCL301 3.2 46.1 1.0 C4C L:BCL301 3.2 48.8 1.0 C1A L:BCL301 3.2 44.6 1.0 CHC L:BCL301 3.4 50.8 1.0 CHB L:BCL301 3.4 43.8 1.0 CHA L:BCL301 3.5 45.1 1.0 CHD L:BCL301 3.5 46.7 1.0 CBB M:BCL403 3.6 43.7 1.0 ND1 L:HIS173 3.9 34.2 1.0 CAB M:BCL403 4.0 49.9 1.0 CG L:HIS173 4.1 39.6 1.0 C3D L:BCL301 4.3 44.6 1.0 C2D L:BCL301 4.3 47.0 1.0 C2B L:BCL301 4.3 47.2 1.0 OBB M:BCL403 4.4 49.8 1.0 C3B L:BCL301 4.4 46.8 1.0 C3A L:BCL301 4.4 44.2 1.0 C2C L:BCL301 4.5 48.3 1.0 C3C L:BCL301 4.5 42.5 1.0 C2A L:BCL301 4.5 43.6 1.0 CD2 L:PHE167 4.6 44.6 1.0 C3B M:BCL403 4.7 48.9 1.0 CMA L:BCL301 4.8 41.8 1.0 CBD L:BCL301 5.0 44.8 1.0

Magnesium binding site 2 out of 4 in the Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg302 b:43.7 occ:1.00 MG L:BCL302 0.0 43.7 1.0 NE2 L:HIS153 1.9 46.3 1.0 ND L:BCL302 2.0 38.2 1.0 NB L:BCL302 2.1 38.8 1.0 NC L:BCL302 2.1 38.4 1.0 NA L:BCL302 2.2 41.9 1.0 CE1 L:HIS153 2.9 45.6 1.0 CD2 L:HIS153 2.9 44.8 1.0 C4D L:BCL302 3.0 37.6 1.0 C4B L:BCL302 3.1 41.2 1.0 C1B L:BCL302 3.1 40.4 1.0 C1C L:BCL302 3.1 41.5 1.0 C4A L:BCL302 3.2 44.5 1.0 C1D L:BCL302 3.2 40.4 1.0 C4C L:BCL302 3.2 40.2 1.0 C1A L:BCL302 3.2 43.2 1.0 CHC L:BCL302 3.4 41.8 1.0 CHB L:BCL302 3.4 37.6 1.0 CHA L:BCL302 3.5 42.1 1.0 CHD L:BCL302 3.5 43.3 1.0 ND1 L:HIS153 4.0 42.9 1.0 CG L:HIS153 4.1 48.5 1.0 C3D L:BCL302 4.2 38.9 1.0 C2D L:BCL302 4.3 43.0 1.0 C2B L:BCL302 4.3 41.7 1.0 C3B L:BCL302 4.4 41.3 1.0 C2C L:BCL302 4.4 39.8 1.0 C3A L:BCL302 4.4 40.0 1.0 C3C L:BCL302 4.5 37.7 1.0 C2A L:BCL302 4.5 41.8 1.0 CBB L:BPH303 4.6 33.1 1.0 C19 L:BPH303 4.6 44.2 1.0 CD1 L:LEU154 4.7 43.3 1.0 CE2 M:TYR210 4.8 44.2 1.0 CBD L:BCL302 4.9 43.4 1.0 CBC L:BCL302 4.9 37.3 1.0 CMC L:BCL302 5.0 38.9 1.0

Magnesium binding site 3 out of 4 in the Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg402 b:44.7 occ:1.00 MG M:BCL402 0.0 44.7 1.0 NE2 M:HIS182 1.9 51.5 1.0 ND M:BCL402 2.1 45.5 1.0 NB M:BCL402 2.1 45.7 1.0 NC M:BCL402 2.1 40.3 1.0 NA M:BCL402 2.2 45.8 1.0 CE1 M:HIS182 2.9 42.9 1.0 CD2 M:HIS182 2.9 44.1 1.0 C4D M:BCL402 3.0 42.0 1.0 C4B M:BCL402 3.1 44.1 1.0 C1B M:BCL402 3.1 46.6 1.0 C1C M:BCL402 3.1 46.9 1.0 C4A M:BCL402 3.1 48.8 1.0 C1D M:BCL402 3.2 42.7 1.0 C4C M:BCL402 3.2 43.8 1.0 C1A M:BCL402 3.2 48.3 1.0 CHC M:BCL402 3.4 43.2 1.0 CHB M:BCL402 3.4 43.3 1.0 CHA M:BCL402 3.5 46.7 1.0 CHD M:BCL402 3.5 40.6 1.0 ND1 M:HIS182 4.0 44.2 1.0 CG M:HIS182 4.1 46.3 1.0 C3D M:BCL402 4.2 37.9 1.0 C2D M:BCL402 4.3 45.6 1.0 C2B M:BCL402 4.3 52.0 1.0 C3B M:BCL402 4.4 50.3 1.0 C2C M:BCL402 4.4 39.2 1.0 C3A M:BCL402 4.4 46.0 1.0 C3C M:BCL402 4.5 38.3 1.0 C2A M:BCL402 4.5 47.8 1.0 CBB M:BPH404 4.6 44.6 1.0 CM5 M:SPN407 4.9 41.8 1.0 CBD M:BCL402 4.9 41.0 1.0 CMA M:BCL402 5.0 49.0 1.0

Magnesium binding site 4 out of 4 in the Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Double Mutant A(L37)C/S(L99)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg403 b:43.3 occ:1.00 MG M:BCL403 0.0 43.3 1.0 NE2 M:HIS202 1.9 43.4 1.0 ND M:BCL403 2.0 44.5 1.0 NB M:BCL403 2.1 49.3 1.0 NC M:BCL403 2.2 50.7 1.0 NA M:BCL403 2.2 41.6 1.0 CE1 M:HIS202 2.8 41.4 1.0 C4D M:BCL403 3.0 46.2 1.0 CD2 M:HIS202 3.0 43.1 1.0 C4B M:BCL403 3.1 46.5 1.0 C1B M:BCL403 3.1 49.3 1.0 C1C M:BCL403 3.1 50.1 1.0 C4A M:BCL403 3.2 45.9 1.0 C1D M:BCL403 3.2 46.0 1.0 C4C M:BCL403 3.2 41.9 1.0 C1A M:BCL403 3.2 42.8 1.0 CHC M:BCL403 3.4 48.0 1.0 CHA M:BCL403 3.4 44.6 1.0 CHB M:BCL403 3.4 46.8 1.0 CHD M:BCL403 3.5 42.4 1.0 CBB L:BCL301 3.6 46.4 1.0 CAB L:BCL301 3.9 48.5 1.0 ND1 M:HIS202 4.0 35.4 1.0 CG M:HIS202 4.1 37.6 1.0 OBB L:BCL301 4.2 47.8 1.0 C3D M:BCL403 4.2 44.4 1.0 C2B M:BCL403 4.3 47.2 1.0 C2D M:BCL403 4.3 45.1 1.0 C3B M:BCL403 4.3 48.9 1.0 C2C M:BCL403 4.4 47.6 1.0 C3A M:BCL403 4.5 43.4 1.0 C3C M:BCL403 4.5 47.8 1.0 C2A M:BCL403 4.5 46.1 1.0 C3B L:BCL301 4.6 46.8 1.0 CBD M:BCL403 4.9 44.6 1.0 O2D M:BCL403 5.0 45.8 1.0 CD1 M:LEU196 5.0 39.3 1.0

G.Selikhanov, A.Atamas, D.Yukhimchuk, T.Fufina, L.Vasilieva, A.Gabdulkhakov. Stabilization of Cereibacter Sphaeroides Photosynthetic Reaction Center By the Introduction of Disulfide Bonds. Membranes (Basel) V. 13 2023.
ISSN: ESSN 2077-0375
PubMed: 36837657
DOI: 10.3390/MEMBRANES13020154