Magnesium in PDB 5prc: Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Atrazine Complex)

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Atrazine Complex), PDB code: 5prc was solved by C.R.D.Lancaster, H.Michel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.35
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 / 23.6

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Atrazine Complex) also contains other interesting chemical elements:

Iron	(Fe)	5 atoms
Chlorine	(Cl)	1 atom

The binding sites of Magnesium atom in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Atrazine Complex) (pdb code 5prc). 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 (Atrazine Complex), PDB code: 5prc:
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 (Atrazine 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 (Atrazine Complex) within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg302 b:13.8 occ:1.00 MG L:BCB302 0.0 13.8 1.0 ND L:BCB302 2.0 11.9 1.0 NB L:BCB302 2.0 11.2 1.0 NE2 L:HIS173 2.0 18.2 1.0 NC L:BCB302 2.1 10.2 1.0 NA L:BCB302 2.1 14.1 1.0 C4D L:BCB302 3.0 11.0 1.0 CE1 L:HIS173 3.0 17.6 1.0 C4B L:BCB302 3.0 15.3 1.0 C1B L:BCB302 3.0 12.9 1.0 C1C L:BCB302 3.0 13.8 1.0 C1D L:BCB302 3.1 11.6 1.0 C4A L:BCB302 3.1 13.0 1.0 C4C L:BCB302 3.1 13.2 1.0 CD2 L:HIS173 3.1 19.9 1.0 C1A L:BCB302 3.2 11.7 1.0 CHC L:BCB302 3.4 13.4 1.0 CHB L:BCB302 3.4 14.7 1.0 CHD L:BCB302 3.5 12.6 1.0 CHA L:BCB302 3.5 13.2 1.0 OBB M:BCB806 3.7 19.0 1.0 CBB M:BCB806 3.8 11.0 1.0 CAB M:BCB806 3.8 9.9 1.0 ND1 L:HIS173 4.1 13.7 1.0 C3D L:BCB302 4.2 11.7 1.0 CD1 L:TRP167 4.2 16.0 1.0 CG L:HIS173 4.2 23.6 1.0 C3B L:BCB302 4.3 12.9 1.0 C2B L:BCB302 4.3 12.2 1.0 NE1 L:TRP167 4.3 19.6 1.0 C2D L:BCB302 4.3 9.6 1.0 C2C L:BCB302 4.3 10.2 1.0 C3C L:BCB302 4.3 9.9 1.0 C3B M:BCB806 4.3 6.7 1.0 C3A L:BCB302 4.4 11.3 1.0 C2A L:BCB302 4.5 10.7 1.0 CBD L:BCB302 5.0 17.4 1.0 C2B M:BCB806 5.0 10.0 1.0

Magnesium binding site 2 out of 4 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Atrazine 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 (Atrazine Complex) within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg304 b:16.5 occ:1.00 MG L:BCB304 0.0 16.5 1.0 NB L:BCB304 2.0 15.2 1.0 ND L:BCB304 2.0 10.5 1.0 NC L:BCB304 2.1 14.2 1.0 NE2 L:HIS153 2.1 15.9 1.0 NA L:BCB304 2.2 9.1 1.0 C4D L:BCB304 3.0 14.0 1.0 C1B L:BCB304 3.0 18.6 1.0 C4B L:BCB304 3.0 17.1 1.0 C1C L:BCB304 3.1 15.3 1.0 C1D L:BCB304 3.1 16.1 1.0 CE1 L:HIS153 3.1 16.1 1.0 C4C L:BCB304 3.1 15.2 1.0 C4A L:BCB304 3.1 12.6 1.0 CD2 L:HIS153 3.2 12.8 1.0 C1A L:BCB304 3.2 14.3 1.0 CHC L:BCB304 3.4 8.7 1.0 CHB L:BCB304 3.4 12.1 1.0 CHD L:BCB304 3.4 13.7 1.0 CHA L:BCB304 3.5 16.2 1.0 OBB L:BPB402 4.2 16.8 1.0 C3D L:BCB304 4.2 14.3 1.0 ND1 L:HIS153 4.2 14.8 1.0 C2B L:BCB304 4.2 23.5 1.0 C3B L:BCB304 4.3 19.3 1.0 C2D L:BCB304 4.3 13.2 1.0 CG L:HIS153 4.3 12.2 1.0 C2C L:BCB304 4.3 16.1 1.0 C3C L:BCB304 4.3 16.1 1.0 C3A L:BCB304 4.4 10.8 1.0 CE2 M:TYR208 4.5 13.9 1.0 C2A L:BCB304 4.5 14.0 1.0 CBA L:BCB304 4.9 12.5 1.0 C20 L:BPB402 4.9 2.0 1.0 CD2 L:LEU154 4.9 6.6 1.0 CBD L:BCB304 5.0 17.8 1.0

Magnesium binding site 3 out of 4 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Atrazine 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 (Atrazine Complex) within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg805 b:22.7 occ:1.00 MG M:BCB805 0.0 22.7 1.0 NB M:BCB805 2.0 27.0 1.0 ND M:BCB805 2.0 23.2 1.0 NE2 M:HIS180 2.1 22.5 1.0 NC M:BCB805 2.1 21.9 1.0 NA M:BCB805 2.2 27.9 1.0 C4D M:BCB805 3.0 25.7 1.0 C4B M:BCB805 3.0 26.3 1.0 C1B M:BCB805 3.0 27.0 1.0 CD2 M:HIS180 3.0 20.2 1.0 C1C M:BCB805 3.1 21.7 1.0 C1D M:BCB805 3.1 21.1 1.0 CE1 M:HIS180 3.1 23.3 1.0 C4C M:BCB805 3.1 19.5 1.0 C4A M:BCB805 3.1 26.7 1.0 C1A M:BCB805 3.2 23.9 1.0 CHC M:BCB805 3.4 24.2 1.0 CHB M:BCB805 3.4 26.4 1.0 CHD M:BCB805 3.5 21.2 1.0 CHA M:BCB805 3.5 24.4 1.0 CG M:HIS180 4.2 21.9 1.0 C3B M:BCB805 4.2 29.6 1.0 C3D M:BCB805 4.2 26.4 1.0 C2B M:BCB805 4.2 28.8 1.0 ND1 M:HIS180 4.2 21.4 1.0 C2D M:BCB805 4.3 21.9 1.0 C2C M:BCB805 4.3 17.6 1.0 C3C M:BCB805 4.4 21.3 1.0 OBB M:BPB401 4.4 37.4 1.0 C3A M:BCB805 4.5 24.7 1.0 C2A M:BCB805 4.5 27.6 1.0 CE2 L:PHE181 4.8 19.5 1.0 CMC M:BCB805 5.0 13.3 1.0 CBD M:BCB805 5.0 20.7 1.0

Magnesium binding site 4 out of 4 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis (Atrazine 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 (Atrazine Complex) within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg806 b:13.3 occ:1.00 MG M:BCB806 0.0 13.3 1.0 NB M:BCB806 2.0 11.7 1.0 ND M:BCB806 2.0 15.7 1.0 NC M:BCB806 2.0 15.8 1.0 NE2 M:HIS200 2.1 16.2 1.0 NA M:BCB806 2.2 12.0 1.0 C4D M:BCB806 3.0 14.8 1.0 C4B M:BCB806 3.0 8.3 1.0 C1C M:BCB806 3.0 13.7 1.0 CE1 M:HIS200 3.0 14.2 1.0 C1B M:BCB806 3.0 9.1 1.0 CD2 M:HIS200 3.1 17.6 1.0 C1D M:BCB806 3.1 17.0 1.0 C4C M:BCB806 3.1 15.8 1.0 C4A M:BCB806 3.2 7.5 1.0 C1A M:BCB806 3.2 13.8 1.0 CHC M:BCB806 3.4 8.0 1.0 CHA M:BCB806 3.5 15.1 1.0 CHB M:BCB806 3.5 11.4 1.0 CHD M:BCB806 3.5 15.9 1.0 CAB L:BCB302 3.7 14.6 1.0 CBB L:BCB302 3.8 12.3 1.0 OBB L:BCB302 3.9 14.8 1.0 ND1 M:HIS200 4.2 13.0 1.0 C3D M:BCB806 4.2 16.1 1.0 CG M:HIS200 4.2 13.0 1.0 C3B M:BCB806 4.3 6.7 1.0 C2B M:BCB806 4.3 10.0 1.0 C2C M:BCB806 4.3 15.9 1.0 C3C M:BCB806 4.3 14.9 1.0 C2D M:BCB806 4.3 14.5 1.0 C3B L:BCB302 4.4 12.9 1.0 C3A M:BCB806 4.5 9.7 1.0 C2A M:BCB806 4.5 14.8 1.0 CD1 M:ILE204 4.8 18.8 1.0 CMC M:BCB806 4.9 13.0 1.0 CBD M:BCB806 4.9 17.1 1.0

C.R.Lancaster, H.Michel. Refined Crystal Structures of Reaction Centres From Rhodopseudomonas Viridis in Complexes with the Herbicide Atrazine and Two Chiral Atrazine Derivatives Also Lead to A New Model of the Bound Carotenoid. J.Mol.Biol. V. 286 883 1999.
ISSN: ISSN 0022-2836
PubMed: 10024457
DOI: 10.1006/JMBI.1998.2532