Magnesium in PDB 8c88: Double Mutant G(M19)C/T(L214)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv

The structure of Double Mutant G(M19)C/T(L214)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c88 was solved by A.Gabdulkhakov, G.Selikhanov, T.Fufina, L.Vasilieva, A.Atamas, D.Yukhimchuk, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.42 / 2.75
Space group	P 42 21 2
Cell size a, b, c (Å), α, β, γ (°)	100.91, 100.91, 237.02, 90, 90, 90
R / Rfree (%)	19.9 / 27.1

The structure of Double Mutant G(M19)C/T(L214)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 G(M19)C/T(L214)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv (pdb code 8c88). 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 G(M19)C/T(L214)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv, PDB code: 8c88:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Double Mutant G(M19)C/T(L214)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 G(M19)C/T(L214)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg502 b:62.5 occ:1.00 MG L:BCL502 0.0 62.5 1.0 NE2 L:HIS173 1.9 61.1 1.0 ND L:BCL502 2.0 64.9 1.0 NB L:BCL502 2.1 65.6 1.0 NC L:BCL502 2.2 62.4 1.0 NA L:BCL502 2.2 67.1 1.0 CE1 L:HIS173 2.7 58.0 1.0 C4D L:BCL502 3.0 61.6 1.0 C1B L:BCL502 3.1 58.1 1.0 CD2 L:HIS173 3.1 61.9 1.0 C4B L:BCL502 3.1 61.6 1.0 C4A L:BCL502 3.1 61.8 1.0 C1D L:BCL502 3.2 60.3 1.0 C1C L:BCL502 3.2 65.1 1.0 C4C L:BCL502 3.2 63.2 1.0 C1A L:BCL502 3.2 61.5 1.0 CHB L:BCL502 3.4 58.6 1.0 CHC L:BCL502 3.4 60.7 1.0 CHA L:BCL502 3.5 63.2 1.0 CHD L:BCL502 3.5 64.6 1.0 CBB M:BCL403 3.8 58.0 1.0 ND1 L:HIS173 3.9 56.2 1.0 CAB M:BCL403 3.9 62.6 1.0 OBB M:BCL403 3.9 66.4 1.0 CG L:HIS173 4.1 55.4 1.0 C3D L:BCL502 4.2 64.9 1.0 C2D L:BCL502 4.3 64.6 1.0 C2B L:BCL502 4.3 55.7 1.0 C3A L:BCL502 4.4 53.7 1.0 C3B L:BCL502 4.4 62.0 1.0 C2C L:BCL502 4.5 59.7 1.0 C2A L:BCL502 4.5 55.0 1.0 C3C L:BCL502 4.5 60.8 1.0 CD2 L:PHE167 4.7 62.9 1.0 C3B M:BCL403 4.7 60.1 1.0 CMA L:BCL502 4.8 56.4 1.0 CBD L:BCL502 5.0 64.6 1.0

Magnesium binding site 2 out of 4 in the Double Mutant G(M19)C/T(L214)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 G(M19)C/T(L214)C Structure of Photosynthetic Reaction Center From Cereibacter Sphaeroides Strain Rv within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg503 b:52.4 occ:1.00 MG L:BCL503 0.0 52.4 1.0 NE2 L:HIS153 1.9 66.7 1.0 ND L:BCL503 2.0 47.2 1.0 NB L:BCL503 2.1 55.3 1.0 NC L:BCL503 2.1 50.1 1.0 NA L:BCL503 2.2 53.4 1.0 CE1 L:HIS153 2.8 60.2 1.0 C4D L:BCL503 3.0 53.1 1.0 CD2 L:HIS153 3.1 59.0 1.0 C4B L:BCL503 3.1 55.5 1.0 C1C L:BCL503 3.1 52.3 1.0 C1B L:BCL503 3.1 55.8 1.0 C4A L:BCL503 3.2 51.2 1.0 C1D L:BCL503 3.2 52.7 1.0 C4C L:BCL503 3.2 47.9 1.0 C1A L:BCL503 3.2 54.2 1.0 CHC L:BCL503 3.4 55.0 1.0 CHB L:BCL503 3.4 55.8 1.0 CHA L:BCL503 3.5 53.3 1.0 CHD L:BCL503 3.5 51.4 1.0 ND1 L:HIS153 4.0 59.5 1.0 CG L:HIS153 4.1 56.7 1.0 C3D L:BCL503 4.2 53.1 1.0 C2D L:BCL503 4.3 50.1 1.0 C2B L:BCL503 4.4 56.2 1.0 C2C L:BCL503 4.4 52.7 1.0 C3B L:BCL503 4.4 55.8 1.0 CBB L:BPH504 4.4 52.5 1.0 C3A L:BCL503 4.4 51.6 1.0 C19 L:BPH504 4.5 57.3 1.0 C3C L:BCL503 4.5 44.5 1.0 C2A L:BCL503 4.5 56.1 1.0 CMA L:BCL503 4.8 48.5 1.0 CE2 M:TYR210 4.8 54.3 1.0 CMC L:BCL503 4.9 57.9 1.0 CD1 L:LEU154 4.9 57.4 1.0 CBD L:BCL503 4.9 52.7 1.0

Magnesium binding site 3 out of 4 in the Double Mutant G(M19)C/T(L214)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 G(M19)C/T(L214)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:58.4 occ:1.00 MG M:BCL402 0.0 58.4 1.0 NE2 M:HIS182 1.9 68.4 1.0 ND M:BCL402 2.0 58.1 1.0 NB M:BCL402 2.1 59.5 1.0 NC M:BCL402 2.2 59.9 1.0 NA M:BCL402 2.2 59.6 1.0 CE1 M:HIS182 2.9 58.8 1.0 CD2 M:HIS182 2.9 59.9 1.0 C4D M:BCL402 3.0 59.8 1.0 C1B M:BCL402 3.1 59.0 1.0 C4B M:BCL402 3.1 61.0 1.0 C4A M:BCL402 3.2 57.9 1.0 C1C M:BCL402 3.2 63.3 1.0 C1D M:BCL402 3.2 58.9 1.0 C4C M:BCL402 3.2 54.8 1.0 C1A M:BCL402 3.2 60.1 1.0 CHB M:BCL402 3.4 55.7 1.0 CHC M:BCL402 3.4 57.6 1.0 CHD M:BCL402 3.5 54.0 1.0 CHA M:BCL402 3.5 60.7 1.0 ND1 M:HIS182 4.0 54.8 1.0 CG M:HIS182 4.0 60.1 1.0 C3D M:BCL402 4.3 56.5 1.0 C2B M:BCL402 4.3 54.6 1.0 C2D M:BCL402 4.3 58.6 1.0 C3B M:BCL402 4.4 62.4 1.0 C2C M:BCL402 4.4 57.3 1.0 CBB M:BPH404 4.4 58.9 1.0 C3A M:BCL402 4.5 54.9 1.0 C3C M:BCL402 4.5 52.7 1.0 C2A M:BCL402 4.5 55.9 1.0 CBD M:BCL402 5.0 56.6 1.0

Magnesium binding site 4 out of 4 in the Double Mutant G(M19)C/T(L214)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 G(M19)C/T(L214)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:58.3 occ:1.00 MG M:BCL403 0.0 58.3 1.0 NE2 M:HIS202 1.9 57.4 1.0 ND M:BCL403 2.1 55.6 1.0 NB M:BCL403 2.1 59.8 1.0 NC M:BCL403 2.1 62.4 1.0 NA M:BCL403 2.2 57.2 1.0 CE1 M:HIS202 2.8 50.6 1.0 C4D M:BCL403 3.0 51.3 1.0 CD2 M:HIS202 3.0 51.2 1.0 C1B M:BCL403 3.1 62.5 1.0 C4B M:BCL403 3.1 54.0 1.0 C1C M:BCL403 3.1 64.5 1.0 C1D M:BCL403 3.2 62.9 1.0 C4A M:BCL403 3.2 55.2 1.0 C4C M:BCL403 3.2 59.6 1.0 C1A M:BCL403 3.3 58.9 1.0 CHC M:BCL403 3.4 55.5 1.0 CHB M:BCL403 3.4 57.4 1.0 CHA M:BCL403 3.5 52.6 1.0 CHD M:BCL403 3.5 56.0 1.0 CBB L:BCL502 3.8 55.3 1.0 OBB L:BCL502 3.9 67.3 1.0 CAB L:BCL502 3.9 61.7 1.0 ND1 M:HIS202 3.9 44.7 1.0 CG M:HIS202 4.1 47.8 1.0 C3D M:BCL403 4.3 54.8 1.0 C2B M:BCL403 4.3 62.2 1.0 C2D M:BCL403 4.4 57.1 1.0 C3B M:BCL403 4.4 60.1 1.0 C2C M:BCL403 4.4 55.1 1.0 C3C M:BCL403 4.5 56.1 1.0 C3A M:BCL403 4.5 56.5 1.0 C2A M:BCL403 4.6 58.3 1.0 C3B L:BCL502 4.8 62.0 1.0 CMC M:BCL403 4.9 45.7 1.0 CBD M:BCL403 4.9 54.5 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