Magnesium in PDB 8c7c: Double Mutant V(M84)C/A(L278)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv

The structure of Double Mutant V(M84)C/A(L278)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c7c 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)	41.99 / 2.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	253.13, 75.98, 65.85, 90, 95.58, 90
R / Rfree (%)	19.3 / 24.9

The structure of Double Mutant V(M84)C/A(L278)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv also contains other interesting chemical elements:

Iron

(Fe)

1 atom

The binding sites of Magnesium atom in the Double Mutant V(M84)C/A(L278)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv (pdb code 8c7c). 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 V(M84)C/A(L278)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c7c:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Double Mutant V(M84)C/A(L278)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 V(M84)C/A(L278)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:70.9 occ:1.00 MG L:BCL301 0.0 70.9 1.0 NE2 L:HIS173 1.9 66.7 1.0 ND L:BCL301 2.1 76.5 1.0 NB L:BCL301 2.1 74.3 1.0 NC L:BCL301 2.2 77.6 1.0 NA L:BCL301 2.2 78.6 1.0 CE1 L:HIS173 2.6 68.0 1.0 C4D L:BCL301 3.0 73.7 1.0 CD2 L:HIS173 3.1 70.8 1.0 C1B L:BCL301 3.1 74.7 1.0 C4B L:BCL301 3.1 76.7 1.0 C4A L:BCL301 3.2 69.9 1.0 C1C L:BCL301 3.2 81.0 1.0 C1D L:BCL301 3.2 74.8 1.0 C4C L:BCL301 3.2 71.8 1.0 C1A L:BCL301 3.2 72.0 1.0 CHB L:BCL301 3.4 74.2 1.0 CHC L:BCL301 3.4 75.6 1.0 CHA L:BCL301 3.5 70.8 1.0 CHD L:BCL301 3.5 69.4 1.0 OBB M:BCL403 3.8 74.4 1.0 ND1 L:HIS173 3.8 67.4 1.0 CBB M:BCL403 3.9 67.6 1.0 CAB M:BCL403 3.9 73.0 1.0 CG L:HIS173 4.1 71.2 1.0 C3D L:BCL301 4.3 78.1 1.0 C2B L:BCL301 4.3 71.1 1.0 C2D L:BCL301 4.4 74.0 1.0 C3B L:BCL301 4.4 68.8 1.0 C3A L:BCL301 4.4 66.2 1.0 C2C L:BCL301 4.5 79.7 1.0 C3C L:BCL301 4.5 75.2 1.0 C2A L:BCL301 4.5 66.2 1.0 C3B M:BCL403 4.7 77.3 1.0 CD2 L:PHE167 4.8 74.4 1.0 CMA L:BCL301 4.9 58.3 1.0

Magnesium binding site 2 out of 4 in the Double Mutant V(M84)C/A(L278)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 V(M84)C/A(L278)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:72.5 occ:1.00 MG L:BCL302 0.0 72.5 1.0 NE2 L:HIS153 1.9 72.4 1.0 ND L:BCL302 2.1 69.0 1.0 NB L:BCL302 2.1 61.9 1.0 NC L:BCL302 2.1 70.4 1.0 NA L:BCL302 2.2 67.0 1.0 CE1 L:HIS153 2.9 69.0 1.0 CD2 L:HIS153 3.0 70.9 1.0 C4D L:BCL302 3.0 60.4 1.0 C4B L:BCL302 3.1 61.5 1.0 C1B L:BCL302 3.1 70.7 1.0 C1C L:BCL302 3.1 76.9 1.0 C4A L:BCL302 3.2 69.7 1.0 C1D L:BCL302 3.2 70.5 1.0 C4C L:BCL302 3.2 70.7 1.0 C1A L:BCL302 3.2 66.9 1.0 CHC L:BCL302 3.4 70.5 1.0 CHB L:BCL302 3.4 67.1 1.0 CHA L:BCL302 3.5 66.2 1.0 CHD L:BCL302 3.5 73.2 1.0 ND1 L:HIS153 4.0 71.3 1.0 CG L:HIS153 4.1 69.8 1.0 C3D L:BCL302 4.2 67.8 1.0 C2D L:BCL302 4.3 63.4 1.0 C2B L:BCL302 4.3 68.9 1.0 C3B L:BCL302 4.4 64.0 1.0 C3A L:BCL302 4.4 69.9 1.0 C2C L:BCL302 4.4 74.1 1.0 C3C L:BCL302 4.5 68.0 1.0 CBB L:BPH303 4.5 60.4 1.0 C2A L:BCL302 4.5 69.4 1.0 CE2 M:TYR210 4.7 69.0 1.0 C19 L:BPH303 4.8 73.5 1.0 CBC L:BCL302 4.9 64.8 1.0 CD1 L:LEU154 4.9 76.2 1.0 CBD L:BCL302 4.9 67.8 1.0 CMA L:BCL302 5.0 64.3 1.0

Magnesium binding site 3 out of 4 in the Double Mutant V(M84)C/A(L278)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 V(M84)C/A(L278)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:69.0 occ:1.00 MG M:BCL402 0.0 69.0 1.0 NE2 M:HIS182 1.9 70.6 1.0 ND M:BCL402 2.0 67.1 1.0 NB M:BCL402 2.1 70.8 1.0 NC M:BCL402 2.1 65.9 1.0 NA M:BCL402 2.2 66.5 1.0 CE1 M:HIS182 2.8 67.3 1.0 CD2 M:HIS182 3.0 72.8 1.0 C4D M:BCL402 3.0 71.9 1.0 C1B M:BCL402 3.1 74.9 1.0 C4B M:BCL402 3.1 66.7 1.0 C1C M:BCL402 3.1 74.8 1.0 C1D M:BCL402 3.2 70.7 1.0 C4A M:BCL402 3.2 75.9 1.0 C4C M:BCL402 3.2 67.0 1.0 C1A M:BCL402 3.2 74.4 1.0 CHB M:BCL402 3.4 76.0 1.0 CHC M:BCL402 3.4 66.8 1.0 CHA M:BCL402 3.5 74.2 1.0 CHD M:BCL402 3.5 70.9 1.0 ND1 M:HIS182 4.0 68.7 1.0 CG M:HIS182 4.1 78.0 1.0 C3D M:BCL402 4.3 72.6 1.0 C2B M:BCL402 4.3 74.9 1.0 C2D M:BCL402 4.3 76.2 1.0 C2C M:BCL402 4.4 77.1 1.0 C3B M:BCL402 4.4 75.2 1.0 C3C M:BCL402 4.4 71.2 1.0 C3A M:BCL402 4.5 77.8 1.0 CBB M:BPH404 4.5 73.8 1.0 C2A M:BCL402 4.5 74.3 1.0 CBD M:BCL402 4.9 71.6 1.0

Magnesium binding site 4 out of 4 in the Double Mutant V(M84)C/A(L278)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 V(M84)C/A(L278)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:71.0 occ:1.00 MG M:BCL403 0.0 71.0 1.0 NE2 M:HIS202 1.9 70.7 1.0 ND M:BCL403 2.0 75.0 1.0 NB M:BCL403 2.1 73.8 1.0 NC M:BCL403 2.2 79.7 1.0 NA M:BCL403 2.2 70.8 1.0 CE1 M:HIS202 2.7 64.9 1.0 C4D M:BCL403 3.0 75.9 1.0 CD2 M:HIS202 3.1 67.4 1.0 C1B M:BCL403 3.1 74.2 1.0 C4B M:BCL403 3.1 68.6 1.0 C4A M:BCL403 3.2 67.7 1.0 C1D M:BCL403 3.2 75.2 1.0 C1C M:BCL403 3.2 76.1 1.0 C4C M:BCL403 3.2 76.1 1.0 C1A M:BCL403 3.2 75.0 1.0 CHB M:BCL403 3.4 71.3 1.0 CHC M:BCL403 3.4 71.8 1.0 CHA M:BCL403 3.5 72.4 1.0 CHD M:BCL403 3.5 71.4 1.0 CBB L:BCL301 3.7 71.2 1.0 CAB L:BCL301 3.9 74.9 1.0 ND1 M:HIS202 3.9 62.4 1.0 OBB L:BCL301 4.0 71.8 1.0 CG M:HIS202 4.1 64.0 1.0 C3D M:BCL403 4.2 70.5 1.0 C2B M:BCL403 4.3 72.5 1.0 C2D M:BCL403 4.3 71.0 1.0 C3B M:BCL403 4.4 77.3 1.0 C2C M:BCL403 4.4 71.4 1.0 C3A M:BCL403 4.5 71.0 1.0 C3C M:BCL403 4.5 75.2 1.0 C2A M:BCL403 4.5 69.0 1.0 C3B L:BCL301 4.6 68.8 1.0 CBD M:BCL403 4.9 68.2 1.0 CD1 M:ILE206 4.9 57.4 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