Magnesium in PDB 1dxr: Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex), PDB code: 1dxr was solved by C.R.D.Lancaster, M.Bibikova, P.Sabatino, D.Oesterhelt, H.Michel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.00
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	223.500, 223.500, 113.600, 90.00, 90.00, 90.00
R / Rfree (%)	19.4 / 21.8

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) also contains other interesting chemical elements:

Iron

(Fe)

5 atoms

The binding sites of Magnesium atom in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) (pdb code 1dxr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex), PDB code: 1dxr:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg400 b:17.5 occ:1.00 MG L:BCB400 0.0 17.5 1.0 ND L:BCB400 2.0 17.1 1.0 NB L:BCB400 2.0 16.7 1.0 NC L:BCB400 2.1 17.3 1.0 NE2 L:HIS173 2.1 17.6 1.0 NA L:BCB400 2.2 16.9 1.0 C4D L:BCB400 3.0 17.4 1.0 C1C L:BCB400 3.0 17.6 1.0 C4B L:BCB400 3.1 17.0 1.0 CD2 L:HIS173 3.1 18.3 1.0 C1B L:BCB400 3.1 16.6 1.0 C1D L:BCB400 3.1 16.7 1.0 CE1 L:HIS173 3.1 17.7 1.0 C4C L:BCB400 3.1 17.4 1.0 C4A L:BCB400 3.2 16.6 1.0 C1A L:BCB400 3.2 17.2 1.0 CHC L:BCB400 3.4 17.2 1.0 CHA L:BCB400 3.5 17.9 1.0 CHD L:BCB400 3.5 17.0 1.0 CBB M:BCB401 3.5 15.3 1.0 CHB L:BCB400 3.5 16.4 1.0 CAB M:BCB401 3.7 15.3 1.0 OBB M:BCB401 4.0 16.9 1.0 C3D L:BCB400 4.2 17.1 1.0 ND1 L:HIS173 4.2 17.9 1.0 CG L:HIS173 4.2 18.7 1.0 C2B L:BCB400 4.3 16.5 1.0 C3B L:BCB400 4.3 16.9 1.0 C2D L:BCB400 4.3 16.6 1.0 C3B M:BCB401 4.3 15.7 1.0 C2C L:BCB400 4.3 18.2 1.0 C3C L:BCB400 4.3 18.2 1.0 CD1 L:TRP167 4.4 15.5 1.0 NE1 L:TRP167 4.5 15.9 1.0 C3A L:BCB400 4.5 17.3 1.0 C2A L:BCB400 4.5 17.5 1.0 C2B M:BCB401 4.8 15.9 1.0 CBD L:BCB400 4.9 18.7 1.0

Magnesium binding site 2 out of 4 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg401 b:18.2 occ:1.00 MG L:BCB401 0.0 18.2 1.0 ND L:BCB401 2.0 17.8 1.0 NB L:BCB401 2.1 17.9 1.0 NE2 L:HIS153 2.1 18.1 1.0 NC L:BCB401 2.1 17.2 1.0 NA L:BCB401 2.2 17.6 1.0 C4D L:BCB401 2.9 18.1 1.0 C1D L:BCB401 3.0 17.7 1.0 C4B L:BCB401 3.1 18.2 1.0 C1B L:BCB401 3.1 18.2 1.0 CD2 L:HIS153 3.1 18.1 1.0 C1C L:BCB401 3.1 17.5 1.0 CE1 L:HIS153 3.1 18.1 1.0 C4C L:BCB401 3.2 17.0 1.0 C4A L:BCB401 3.2 17.6 1.0 C1A L:BCB401 3.2 17.8 1.0 CHD L:BCB401 3.4 17.5 1.0 CHC L:BCB401 3.5 18.4 1.0 CHA L:BCB401 3.5 18.7 1.0 CHB L:BCB401 3.5 18.1 1.0 C3D L:BCB401 4.1 18.4 1.0 CBB L:BPB402 4.2 19.8 1.0 C2D L:BCB401 4.2 18.0 1.0 ND1 L:HIS153 4.3 18.3 1.0 CG L:HIS153 4.3 17.9 1.0 C2B L:BCB401 4.3 18.3 1.0 C3B L:BCB401 4.3 18.6 1.0 C2C L:BCB401 4.4 16.7 1.0 C3C L:BCB401 4.4 16.7 1.0 C3A L:BCB401 4.5 17.7 1.0 C2A L:BCB401 4.5 17.5 1.0 CE2 M:TYR208 4.6 16.5 1.0 CD2 L:LEU154 4.9 20.1 1.0 CBD L:BCB401 5.0 19.6 1.0 C20 L:BPB402 5.0 26.0 1.0

Magnesium binding site 3 out of 4 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg400 b:24.2 occ:1.00 MG M:BCB400 0.0 24.2 1.0 ND M:BCB400 2.0 23.9 1.0 NB M:BCB400 2.1 24.3 1.0 NC M:BCB400 2.1 23.4 1.0 NE2 M:HIS180 2.1 23.1 1.0 NA M:BCB400 2.2 24.7 1.0 C4D M:BCB400 3.0 24.3 1.0 CD2 M:HIS180 3.1 21.8 1.0 C4B M:BCB400 3.1 24.5 1.0 C1B M:BCB400 3.1 24.9 1.0 C1D M:BCB400 3.1 23.8 1.0 C1C M:BCB400 3.1 23.3 1.0 CE1 M:HIS180 3.2 22.1 1.0 C4C M:BCB400 3.2 23.5 1.0 C4A M:BCB400 3.2 25.1 1.0 C1A M:BCB400 3.2 24.9 1.0 CHC M:BCB400 3.4 23.3 1.0 CHD M:BCB400 3.5 23.5 1.0 CHB M:BCB400 3.5 24.6 1.0 CHA M:BCB400 3.5 24.4 1.0 C3D M:BCB400 4.2 23.8 1.0 CG M:HIS180 4.3 21.7 1.0 ND1 M:HIS180 4.3 21.4 1.0 C2D M:BCB400 4.3 23.6 1.0 C2B M:BCB400 4.3 25.3 1.0 OBB M:BPB402 4.3 35.0 1.0 C3B M:BCB400 4.3 25.6 1.0 C2C M:BCB400 4.4 22.9 1.0 C3C M:BCB400 4.4 23.4 1.0 C3A M:BCB400 4.5 25.4 1.0 C2A M:BCB400 4.5 26.1 1.0 CE2 L:PHE181 4.8 20.1 1.0 CBA M:BCB400 4.9 33.6 1.0 CD1 M:ILE181 4.9 25.0 1.0 CBD M:BCB400 5.0 24.1 1.0 C16 M:NS5600 5.0 39.3 1.0

Magnesium binding site 4 out of 4 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg401 b:18.2 occ:1.00 MG M:BCB401 0.0 18.2 1.0 ND M:BCB401 2.0 18.6 1.0 NC M:BCB401 2.0 17.4 1.0 NB M:BCB401 2.0 16.9 1.0 NE2 M:HIS200 2.1 17.8 1.0 NA M:BCB401 2.2 17.8 1.0 C4D M:BCB401 3.0 18.3 1.0 OBB L:BCB400 3.0 18.7 1.0 C1C M:BCB401 3.0 16.7 1.0 C4B M:BCB401 3.1 16.3 1.0 C1B M:BCB401 3.1 16.2 1.0 CE1 M:HIS200 3.1 17.5 1.0 C1D M:BCB401 3.1 18.1 1.0 CD2 M:HIS200 3.1 17.6 1.0 C4C M:BCB401 3.1 17.2 1.0 C4A M:BCB401 3.2 17.2 1.0 C1A M:BCB401 3.2 18.1 1.0 CHC M:BCB401 3.4 16.6 1.0 CAB L:BCB400 3.4 17.3 1.0 CHD M:BCB401 3.5 17.6 1.0 CHB M:BCB401 3.5 16.6 1.0 CHA M:BCB401 3.5 18.5 1.0 CBB L:BCB400 4.0 17.2 1.0 C3D M:BCB401 4.2 18.3 1.0 ND1 M:HIS200 4.2 17.3 1.0 C3B L:BCB400 4.2 16.9 1.0 CG M:HIS200 4.3 17.9 1.0 C2B M:BCB401 4.3 15.9 1.0 C2C M:BCB401 4.3 17.1 1.0 C2D M:BCB401 4.3 18.1 1.0 C3B M:BCB401 4.3 15.7 1.0 C3C M:BCB401 4.3 16.8 1.0 C3A M:BCB401 4.5 17.6 1.0 C2A M:BCB401 4.5 18.5 1.0 CHC L:BCB400 4.8 17.2 1.0 C4B L:BCB400 4.8 17.0 1.0 CMC M:BCB401 4.9 16.9 1.0 CBD M:BCB401 4.9 19.7 1.0

C.R.Lancaster, M.V.Bibikova, P.Sabatino, D.Oesterhelt, H.Michel. Structural Basis of the Drastically Increased Initial Electron Transfer Rate in the Reaction Center From A Rhodopseudomonas Viridis Mutant Described at 2.00-A Resolution. J. Biol. Chem. V. 275 39364 2000.
ISSN: ISSN 0021-9258
PubMed: 11005826
DOI: 10.1074/JBC.M008225200