Magnesium in PDB 1vrn: Photosynthetic Reaction Center Blastochloris Viridis (Atcc)

The structure of Photosynthetic Reaction Center Blastochloris Viridis (Atcc), PDB code: 1vrn was solved by R.H.G.Baxter, B.-L.Seagle, J.R.Norris, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.18 / 2.20
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	219.400, 219.400, 112.600, 90.00, 90.00, 90.00
R / Rfree (%)	19.1 / 21.2

The structure of Photosynthetic Reaction Center Blastochloris Viridis (Atcc) also contains other interesting chemical elements:

Iron

(Fe)

5 atoms

The binding sites of Magnesium atom in the Photosynthetic Reaction Center Blastochloris Viridis (Atcc) (pdb code 1vrn). 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 Blastochloris Viridis (Atcc), PDB code: 1vrn:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Photosynthetic Reaction Center Blastochloris Viridis (Atcc)


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 Blastochloris Viridis (Atcc) within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg402 b:18.2 occ:1.00 MG L:BCB402 0.0 18.2 1.0 ND L:BCB402 2.0 13.9 1.0 NB L:BCB402 2.0 15.7 1.0 NE2 L:HIS173 2.1 17.1 1.0 NC L:BCB402 2.1 15.6 1.0 NA L:BCB402 2.2 18.3 1.0 C4D L:BCB402 3.0 15.3 1.0 CE1 L:HIS173 3.0 19.7 1.0 C4B L:BCB402 3.1 15.5 1.0 C1C L:BCB402 3.1 16.0 1.0 C1B L:BCB402 3.1 14.9 1.0 C1D L:BCB402 3.1 14.7 1.0 CD2 L:HIS173 3.1 16.6 1.0 C4C L:BCB402 3.2 16.5 1.0 C4A L:BCB402 3.2 18.4 1.0 C1A L:BCB402 3.2 17.0 1.0 CBB M:BCB403 3.4 16.4 1.0 CHC L:BCB402 3.4 17.7 1.0 CHA L:BCB402 3.5 15.1 1.0 CHD L:BCB402 3.5 16.5 1.0 CHB L:BCB402 3.5 15.1 1.0 CAB M:BCB403 3.6 16.7 1.0 OBB M:BCB403 3.8 16.3 1.0 ND1 L:HIS173 4.2 15.5 1.0 C3D L:BCB402 4.2 15.9 1.0 CG L:HIS173 4.3 18.8 1.0 C2B L:BCB402 4.3 14.2 1.0 CD1 L:TRP167 4.3 17.8 1.0 C2D L:BCB402 4.3 16.8 1.0 C3B L:BCB402 4.3 14.6 1.0 C2C L:BCB402 4.4 17.4 1.0 NE1 L:TRP167 4.4 18.8 1.0 C3C L:BCB402 4.4 17.2 1.0 C3B M:BCB403 4.4 13.3 1.0 C2A L:BCB402 4.5 17.4 1.0 C3A L:BCB402 4.5 18.0 1.0 CBD L:BCB402 4.9 18.2 1.0

Magnesium binding site 2 out of 4 in the Photosynthetic Reaction Center Blastochloris Viridis (Atcc)


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 Blastochloris Viridis (Atcc) within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg404 b:16.6 occ:1.00 MG L:BCB404 0.0 16.6 1.0 ND L:BCB404 2.0 15.3 1.0 NB L:BCB404 2.1 14.4 1.0 NC L:BCB404 2.1 13.6 1.0 NE2 L:HIS153 2.1 16.4 1.0 NA L:BCB404 2.2 16.9 1.0 C4D L:BCB404 3.0 14.5 1.0 C4B L:BCB404 3.1 16.8 1.0 C1C L:BCB404 3.1 16.9 1.0 C1B L:BCB404 3.1 14.5 1.0 C1D L:BCB404 3.1 15.1 1.0 CE1 L:HIS153 3.1 15.5 1.0 CD2 L:HIS153 3.1 14.2 1.0 C4C L:BCB404 3.2 16.2 1.0 C4A L:BCB404 3.2 14.0 1.0 C1A L:BCB404 3.2 15.8 1.0 CHC L:BCB404 3.4 16.2 1.0 CHD L:BCB404 3.5 15.9 1.0 CHB L:BCB404 3.5 14.8 1.0 CHA L:BCB404 3.5 16.7 1.0 C3D L:BCB404 4.2 15.0 1.0 ND1 L:HIS153 4.3 13.4 1.0 C2D L:BCB404 4.3 16.7 1.0 OBB L:BPB406 4.3 27.0 1.0 CG L:HIS153 4.3 15.3 1.0 C2B L:BCB404 4.3 15.1 1.0 C3B L:BCB404 4.3 14.8 1.0 C2C L:BCB404 4.4 15.9 1.0 C3C L:BCB404 4.4 15.3 1.0 C3A L:BCB404 4.5 16.8 1.0 C2A L:BCB404 4.5 17.1 1.0 CE2 M:TYR208 4.6 14.7 1.0 CD2 L:LEU154 4.8 17.6 1.0 C20 L:BPB406 4.8 18.7 1.0 CBA L:BCB404 5.0 17.7 1.0 CBD L:BCB404 5.0 17.1 1.0

Magnesium binding site 3 out of 4 in the Photosynthetic Reaction Center Blastochloris Viridis (Atcc)


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 Blastochloris Viridis (Atcc) within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg401 b:19.8 occ:1.00 MG M:BCB401 0.0 19.8 1.0 ND M:BCB401 2.0 19.4 1.0 NB M:BCB401 2.1 20.4 1.0 NE2 M:HIS180 2.1 19.6 1.0 NC M:BCB401 2.1 19.1 1.0 NA M:BCB401 2.2 20.7 1.0 C4D M:BCB401 3.0 19.2 1.0 C4B M:BCB401 3.1 22.9 1.0 C1C M:BCB401 3.1 19.3 1.0 C1B M:BCB401 3.1 21.9 1.0 CD2 M:HIS180 3.1 21.1 1.0 C1D M:BCB401 3.1 18.1 1.0 CE1 M:HIS180 3.1 20.6 1.0 C4C M:BCB401 3.2 19.0 1.0 C4A M:BCB401 3.2 23.4 1.0 C1A M:BCB401 3.2 20.7 1.0 CHC M:BCB401 3.4 20.9 1.0 CHB M:BCB401 3.5 24.0 1.0 CHD M:BCB401 3.5 17.8 1.0 CHA M:BCB401 3.5 20.1 1.0 C3D M:BCB401 4.2 18.8 1.0 CG M:HIS180 4.3 21.5 1.0 ND1 M:HIS180 4.3 17.6 1.0 C2B M:BCB401 4.3 22.4 1.0 C3B M:BCB401 4.3 23.5 1.0 C2D M:BCB401 4.3 18.3 1.0 OBB M:BPB405 4.3 32.3 1.0 C2C M:BCB401 4.4 18.6 1.0 C3C M:BCB401 4.4 18.2 1.0 C3A M:BCB401 4.5 23.4 1.0 C2A M:BCB401 4.5 21.7 1.0 CE2 L:PHE181 4.8 18.7 1.0 CBA M:BCB401 4.9 25.0 1.0 CBD M:BCB401 5.0 20.4 1.0 C16 M:NS5600 5.0 31.1 1.0

Magnesium binding site 4 out of 4 in the Photosynthetic Reaction Center Blastochloris Viridis (Atcc)


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 Blastochloris Viridis (Atcc) within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg403 b:18.5 occ:1.00 MG M:BCB403 0.0 18.5 1.0 ND M:BCB403 2.0 17.0 1.0 NB M:BCB403 2.0 14.2 1.0 NC M:BCB403 2.1 15.0 1.0 NE2 M:HIS200 2.1 17.6 1.0 NA M:BCB403 2.2 17.0 1.0 C4D M:BCB403 3.0 16.8 1.0 CE1 M:HIS200 3.0 17.7 1.0 C1C M:BCB403 3.0 17.1 1.0 C4B M:BCB403 3.0 13.7 1.0 C1B M:BCB403 3.1 13.2 1.0 C1D M:BCB403 3.1 16.5 1.0 C4C M:BCB403 3.1 17.8 1.0 CD2 M:HIS200 3.1 16.7 1.0 C4A M:BCB403 3.2 16.9 1.0 C1A M:BCB403 3.2 16.8 1.0 CBB L:BCB402 3.4 17.2 1.0 CHC M:BCB403 3.4 12.5 1.0 CHA M:BCB403 3.5 15.7 1.0 CHD M:BCB403 3.5 13.2 1.0 CHB M:BCB403 3.5 14.7 1.0 CAB L:BCB402 3.7 15.2 1.0 OBB L:BCB402 3.9 19.6 1.0 ND1 M:HIS200 4.2 17.5 1.0 C3D M:BCB403 4.2 15.7 1.0 CG M:HIS200 4.3 19.1 1.0 C2D M:BCB403 4.3 16.5 1.0 C2B M:BCB403 4.3 13.3 1.0 C3B M:BCB403 4.3 13.3 1.0 C2C M:BCB403 4.3 16.6 1.0 C3C M:BCB403 4.3 16.6 1.0 C3B L:BCB402 4.4 14.6 1.0 C3A M:BCB403 4.5 20.0 1.0 C2A M:BCB403 4.5 18.5 1.0 CD1 M:ILE204 4.9 20.9 1.0 CBD M:BCB403 4.9 18.7 1.0 CMC M:BCB403 5.0 17.6 1.0

R.H.Baxter, B.L.Seagle, N.Ponomarenko, J.R.Norris. Cryogenic Structure of the Photosynthetic Reaction Center of Blastochloris Viridis in the Light and Dark. Acta Crystallogr.,Sect.D V. 61 605 2005.
ISSN: ISSN 0907-4449
PubMed: 15858271
DOI: 10.1107/S0907444905005809