Magnesium in PDB 8c6k: Double Mutant A(L53)C/I(L64)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv

The structure of Double Mutant A(L53)C/I(L64)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c6k 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 / 2.86
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	139.636, 139.636, 185.091, 90, 90, 120
R / Rfree (%)	22.9 / 27.9

The structure of Double Mutant A(L53)C/I(L64)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(L53)C/I(L64)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv (pdb code 8c6k). 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(L53)C/I(L64)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c6k:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Double Mutant A(L53)C/I(L64)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(L53)C/I(L64)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:2.3 occ:1.00 MG L:BCL301 0.0 2.3 1.0 NE2 L:HIS173 1.9 2.3 1.0 ND L:BCL301 2.0 2.9 1.0 NB L:BCL301 2.1 2.1 1.0 NC L:BCL301 2.1 2.4 1.0 NA L:BCL301 2.2 2.2 1.0 CE1 L:HIS173 2.8 2.3 1.0 CD2 L:HIS173 3.0 2.8 1.0 C4D L:BCL301 3.0 8.5 1.0 C4B L:BCL301 3.1 2.1 1.0 C1B L:BCL301 3.1 2.0 1.0 C1C L:BCL301 3.1 2.3 1.0 C4A L:BCL301 3.1 2.1 1.0 C1D L:BCL301 3.2 2.5 1.0 C4C L:BCL301 3.2 2.5 1.0 C1A L:BCL301 3.2 8.7 1.0 CHC L:BCL301 3.4 2.2 1.0 CHB L:BCL301 3.4 2.0 1.0 CHA L:BCL301 3.5 4.8 1.0 CBB M:BCL403 3.5 3.9 1.0 CHD L:BCL301 3.5 2.5 1.0 CAB M:BCL403 3.8 5.1 1.0 ND1 L:HIS173 4.0 2.3 1.0 CG L:HIS173 4.1 2.3 1.0 OBB M:BCL403 4.1 2.3 1.0 C3D L:BCL301 4.3 11.8 1.0 C2B L:BCL301 4.3 2.0 1.0 C3B L:BCL301 4.3 2.0 1.0 C2D L:BCL301 4.3 2.6 1.0 C3A L:BCL301 4.3 5.4 1.0 C2C L:BCL301 4.4 2.4 1.0 C3C L:BCL301 4.5 2.5 1.0 C2A L:BCL301 4.5 6.6 1.0 C3B M:BCL403 4.5 2.1 1.0 CD2 L:PHE167 4.5 2.6 1.0 CMA L:BCL301 4.7 4.9 1.0 CBD L:BCL301 5.0 6.0 1.0 CD1 L:ILE177 5.0 2.0 1.0

Magnesium binding site 2 out of 4 in the Double Mutant A(L53)C/I(L64)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(L53)C/I(L64)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:12.0 occ:1.00 MG L:BCL302 0.0 12.0 1.0 NE2 L:HIS153 1.9 7.0 1.0 ND L:BCL302 2.0 10.7 1.0 NB L:BCL302 2.1 11.8 1.0 NC L:BCL302 2.1 13.9 1.0 NA L:BCL302 2.2 8.2 1.0 CE1 L:HIS153 2.8 12.8 1.0 CD2 L:HIS153 3.0 14.8 1.0 C4D L:BCL302 3.0 6.8 1.0 C4B L:BCL302 3.1 5.6 1.0 C1B L:BCL302 3.1 7.7 1.0 C1C L:BCL302 3.1 9.1 1.0 C4A L:BCL302 3.2 7.2 1.0 C1D L:BCL302 3.2 18.6 1.0 C4C L:BCL302 3.2 7.5 1.0 C1A L:BCL302 3.2 9.1 1.0 CHC L:BCL302 3.4 9.2 1.0 CHB L:BCL302 3.4 10.3 1.0 CHA L:BCL302 3.5 6.9 1.0 CHD L:BCL302 3.5 7.3 1.0 ND1 L:HIS153 4.0 8.4 1.0 CG L:HIS153 4.1 13.9 1.0 C3D L:BCL302 4.2 11.2 1.0 C2D L:BCL302 4.3 15.5 1.0 C2B L:BCL302 4.3 5.9 1.0 C2C L:BCL302 4.3 8.0 1.0 C3B L:BCL302 4.4 6.6 1.0 C3A L:BCL302 4.4 2.9 1.0 C3C L:BCL302 4.5 11.9 1.0 C2A L:BCL302 4.5 2.5 1.0 C19 L:BPH303 4.6 4.1 1.0 CBB L:BPH303 4.7 10.1 1.0 CD1 L:LEU154 4.8 4.5 1.0 CMC L:BCL302 4.8 3.5 1.0 CE2 M:TYR210 4.9 9.5 1.0 CBD L:BCL302 4.9 4.4 1.0 CMA L:BCL302 5.0 2.1 1.0

Magnesium binding site 3 out of 4 in the Double Mutant A(L53)C/I(L64)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(L53)C/I(L64)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:4.9 occ:1.00 MG M:BCL402 0.0 4.9 1.0 NE2 M:HIS182 1.9 20.3 1.0 ND M:BCL402 2.1 2.5 1.0 NB M:BCL402 2.1 8.7 1.0 NC M:BCL402 2.1 6.1 1.0 NA M:BCL402 2.2 7.5 1.0 CE1 M:HIS182 2.8 9.9 1.0 CD2 M:HIS182 3.0 9.3 1.0 C4D M:BCL402 3.0 3.4 1.0 C1C M:BCL402 3.1 7.2 1.0 C4B M:BCL402 3.1 6.5 1.0 C1B M:BCL402 3.1 5.2 1.0 C4C M:BCL402 3.1 5.3 1.0 C1D M:BCL402 3.1 4.1 1.0 C4A M:BCL402 3.2 6.7 1.0 C1A M:BCL402 3.3 7.4 1.0 CHC M:BCL402 3.4 5.0 1.0 CHB M:BCL402 3.4 2.9 1.0 CHD M:BCL402 3.5 6.5 1.0 CHA M:BCL402 3.5 5.8 1.0 ND1 M:HIS182 4.0 4.6 1.0 CG M:HIS182 4.1 6.4 1.0 C3D M:BCL402 4.2 2.2 1.0 C2D M:BCL402 4.3 1.9 1.0 C2B M:BCL402 4.3 5.4 1.0 C3B M:BCL402 4.4 4.7 1.0 C2C M:BCL402 4.4 6.2 1.0 C3A M:BCL402 4.4 5.3 1.0 C3C M:BCL402 4.4 3.6 1.0 C2A M:BCL402 4.5 6.9 1.0 CMA M:BCL402 4.7 8.1 1.0 CBB M:BPH404 4.9 11.6 1.0 CE2 L:PHE181 4.9 5.8 1.0 CBD M:BCL402 5.0 3.4 1.0

Magnesium binding site 4 out of 4 in the Double Mutant A(L53)C/I(L64)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(L53)C/I(L64)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:1.9 occ:1.00 MG M:BCL403 0.0 1.9 1.0 NE2 M:HIS202 1.9 5.7 1.0 ND M:BCL403 2.0 2.8 1.0 NB M:BCL403 2.1 2.0 1.0 NC M:BCL403 2.1 2.1 1.0 NA M:BCL403 2.2 1.8 1.0 CE1 M:HIS202 2.8 2.4 1.0 C4D M:BCL403 3.0 2.8 1.0 CD2 M:HIS202 3.0 3.4 1.0 C4B M:BCL403 3.1 2.1 1.0 C1C M:BCL403 3.1 2.2 1.0 C1B M:BCL403 3.1 1.9 1.0 C4A M:BCL403 3.1 2.0 1.0 C1D M:BCL403 3.2 7.4 1.0 C4C M:BCL403 3.2 3.4 1.0 C1A M:BCL403 3.2 2.3 1.0 CHC M:BCL403 3.4 2.2 1.0 CHB M:BCL403 3.4 1.8 1.0 CHA M:BCL403 3.5 5.9 1.0 CHD M:BCL403 3.5 4.9 1.0 CBB L:BCL301 3.7 1.9 1.0 CAB L:BCL301 3.8 2.5 1.0 ND1 M:HIS202 3.9 2.4 1.0 OBB L:BCL301 4.0 3.0 1.0 CG M:HIS202 4.1 2.5 1.0 C3D M:BCL403 4.2 1.8 1.0 C2B M:BCL403 4.3 2.4 1.0 C2D M:BCL403 4.3 8.1 1.0 C3B M:BCL403 4.3 2.1 1.0 C2C M:BCL403 4.3 2.3 1.0 C3C M:BCL403 4.4 2.7 1.0 C3A M:BCL403 4.5 2.2 1.0 C2A M:BCL403 4.5 1.6 1.0 C3B L:BCL301 4.5 2.0 1.0 CMC M:BCL403 4.7 7.2 1.0 CBD M:BCL403 4.8 4.1 1.0 CD1 M:ILE206 4.9 18.1 1.0 O2D M:BCL403 5.0 7.8 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