Magnesium in PDB 1k6l: Photosynethetic Reaction Center From Rhodobacter Sphaeroides

The structure of Photosynethetic Reaction Center From Rhodobacter Sphaeroides, PDB code: 1k6l was solved by P.R.Pokkuluri, P.D.Laible, Y.-L.Deng, T.N.Wong, D.K.Hanson, M.Schiffer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 3.10
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	141.500, 141.500, 187.200, 90.00, 90.00, 120.00
R / Rfree (%)	19.3 / 19.4

The structure of Photosynethetic Reaction Center From Rhodobacter Sphaeroides also contains other interesting chemical elements:

Iron

(Fe)

1 atom

The binding sites of Magnesium atom in the Photosynethetic Reaction Center From Rhodobacter Sphaeroides (pdb code 1k6l). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Photosynethetic Reaction Center From Rhodobacter Sphaeroides, PDB code: 1k6l:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Photosynethetic Reaction Center From Rhodobacter Sphaeroides


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Photosynethetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg302 b:17.6 occ:1.00 MG L:BCL302 0.0 17.6 1.0 ND L:BCL302 2.0 19.8 1.0 NB L:BCL302 2.1 15.3 1.0 NC L:BCL302 2.1 20.7 1.0 NA L:BCL302 2.2 14.4 1.0 NE2 L:HIS173 2.3 14.2 1.0 C4D L:BCL302 3.0 20.5 1.0 C1B L:BCL302 3.1 7.1 1.0 C4B L:BCL302 3.1 14.7 1.0 C1D L:BCL302 3.1 17.0 1.0 C4A L:BCL302 3.1 6.5 1.0 C1C L:BCL302 3.1 17.3 1.0 C4C L:BCL302 3.2 17.6 1.0 CD2 L:HIS173 3.2 14.9 1.0 C1A L:BCL302 3.2 16.3 1.0 CE1 L:HIS173 3.3 18.5 1.0 CHB L:BCL302 3.5 8.6 1.0 CHC L:BCL302 3.5 15.9 1.0 CHD L:BCL302 3.5 12.4 1.0 CHA L:BCL302 3.5 15.7 1.0 OBB M:BCL502 3.6 35.1 1.0 CAB M:BCL502 3.8 25.4 1.0 CBB M:BCL502 4.0 30.6 1.0 C3D L:BCL302 4.2 15.3 1.0 C2B L:BCL302 4.3 13.2 1.0 C2D L:BCL302 4.3 20.2 1.0 C3B L:BCL302 4.3 20.7 1.0 CG L:HIS173 4.3 20.2 1.0 ND1 L:HIS173 4.4 14.0 1.0 C3A L:BCL302 4.4 12.9 1.0 C2C L:BCL302 4.4 12.2 1.0 C3C L:BCL302 4.5 15.1 1.0 C2A L:BCL302 4.5 13.3 1.0 C3B M:BCL502 4.5 23.5 1.0 CD2 L:PHE167 4.7 23.1 1.0 CMA L:BCL302 4.9 5.1 1.0 CBD L:BCL302 5.0 15.8 1.0

Magnesium binding site 2 out of 4 in the Photosynethetic Reaction Center From Rhodobacter Sphaeroides


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Photosynethetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg304 b:11.7 occ:1.00 MG L:BCL304 0.0 11.7 1.0 ND L:BCL304 2.0 2.0 1.0 NB L:BCL304 2.1 5.1 1.0 NC L:BCL304 2.1 2.0 1.0 NA L:BCL304 2.2 2.0 1.0 NE2 L:HIS153 2.3 18.5 1.0 C4D L:BCL304 3.0 2.0 1.0 C1D L:BCL304 3.0 9.3 1.0 C1B L:BCL304 3.1 3.1 1.0 C4B L:BCL304 3.1 2.0 1.0 C1C L:BCL304 3.1 8.6 1.0 C4C L:BCL304 3.1 5.7 1.0 C4A L:BCL304 3.1 2.0 1.0 C1A L:BCL304 3.2 4.1 1.0 CD2 L:HIS153 3.3 25.8 1.0 CE1 L:HIS153 3.3 24.6 1.0 CHC L:BCL304 3.4 7.7 1.0 CHB L:BCL304 3.4 2.0 1.0 CHD L:BCL304 3.4 3.6 1.0 CHA L:BCL304 3.5 2.8 1.0 C3D L:BCL304 4.2 2.1 1.0 C2D L:BCL304 4.3 7.1 1.0 C2B L:BCL304 4.3 2.0 1.0 CBB L:BPH402 4.3 29.4 1.0 C3B L:BCL304 4.3 7.2 1.0 C3C L:BCL304 4.3 7.3 1.0 C2C L:BCL304 4.4 10.1 1.0 CG L:HIS153 4.4 28.9 1.0 C3A L:BCL304 4.4 8.2 1.0 ND1 L:HIS153 4.4 25.9 1.0 C2A L:BCL304 4.5 9.2 1.0 CE2 M:TYR210 4.6 17.2 1.0 CBA L:BCL304 4.9 15.5 1.0 CD2 L:LEU154 4.9 21.1 1.0 CAC L:BCL304 4.9 17.3 1.0 CBD L:BCL304 5.0 11.5 1.0

Magnesium binding site 3 out of 4 in the Photosynethetic Reaction Center From Rhodobacter Sphaeroides


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Photosynethetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg501 b:29.3 occ:1.00 MG M:BCL501 0.0 29.3 1.0 ND M:BCL501 2.0 27.8 1.0 NB M:BCL501 2.1 29.9 1.0 NC M:BCL501 2.1 27.9 1.0 NA M:BCL501 2.2 29.0 1.0 NE2 M:HIS182 2.2 24.7 1.0 C4D M:BCL501 3.0 27.9 1.0 C1B M:BCL501 3.1 29.5 1.0 CD2 M:HIS182 3.1 20.6 1.0 C1D M:BCL501 3.1 27.2 1.0 C4B M:BCL501 3.1 29.9 1.0 C4C M:BCL501 3.1 28.8 1.0 C1C M:BCL501 3.1 29.1 1.0 C4A M:BCL501 3.2 30.7 1.0 C1A M:BCL501 3.2 29.7 1.0 CE1 M:HIS182 3.2 22.8 1.0 CHB M:BCL501 3.5 30.6 1.0 CHA M:BCL501 3.5 28.7 1.0 CHD M:BCL501 3.5 27.8 1.0 CHC M:BCL501 3.5 29.1 1.0 C3D M:BCL501 4.2 27.7 1.0 CG M:HIS182 4.3 13.9 1.0 C2B M:BCL501 4.3 30.6 1.0 C2D M:BCL501 4.3 28.8 1.0 ND1 M:HIS182 4.3 15.0 1.0 C3B M:BCL501 4.3 30.4 1.0 C3C M:BCL501 4.4 29.9 1.0 C2C M:BCL501 4.4 30.1 1.0 C3A M:BCL501 4.5 32.0 1.0 C2A M:BCL501 4.5 32.2 1.0 CBB M:BPH401 4.8 32.8 1.0 CE2 L:PHE181 4.8 23.8 1.0 CBD M:BCL501 5.0 30.2 1.0 CBA M:BCL501 5.0 40.7 1.0

Magnesium binding site 4 out of 4 in the Photosynethetic Reaction Center From Rhodobacter Sphaeroides


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Photosynethetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg502 b:17.8 occ:1.00 MG M:BCL502 0.0 17.8 1.0 ND M:BCL502 2.0 16.8 1.0 NB M:BCL502 2.1 18.5 1.0 NC M:BCL502 2.1 21.8 1.0 NA M:BCL502 2.2 13.3 1.0 NE2 M:HIS202 2.2 17.2 1.0 C4D M:BCL502 3.0 19.3 1.0 C1B M:BCL502 3.1 20.9 1.0 C4B M:BCL502 3.1 18.4 1.0 C1C M:BCL502 3.1 21.4 1.0 C1D M:BCL502 3.1 16.6 1.0 CE1 M:HIS202 3.1 26.6 1.0 C4C M:BCL502 3.1 21.3 1.0 CD2 M:HIS202 3.1 19.0 1.0 C4A M:BCL502 3.1 15.2 1.0 C1A M:BCL502 3.2 12.6 1.0 CHC M:BCL502 3.4 17.9 1.0 CHB M:BCL502 3.5 11.0 1.0 CHA M:BCL502 3.5 13.4 1.0 CHD M:BCL502 3.5 17.6 1.0 CBB L:BCL302 3.7 16.1 1.0 CAB L:BCL302 4.0 18.5 1.0 OBB L:BCL302 4.2 27.2 1.0 C3D M:BCL502 4.2 20.1 1.0 ND1 M:HIS202 4.3 18.8 1.0 CG M:HIS202 4.3 18.1 1.0 C2B M:BCL502 4.3 24.1 1.0 C3B M:BCL502 4.3 23.5 1.0 C2D M:BCL502 4.3 21.4 1.0 C2C M:BCL502 4.3 23.6 1.0 C3C M:BCL502 4.4 21.0 1.0 C2A M:BCL502 4.4 15.7 1.0 C3A M:BCL502 4.4 13.7 1.0 C3B L:BCL302 4.5 20.7 1.0 CBD M:BCL502 4.9 18.2 1.0 O2D M:BCL502 4.9 28.3 1.0 CMC M:BCL502 5.0 15.6 1.0

P.R.Pokkuluri, P.D.Laible, Y.L.Deng, T.N.Wong, D.K.Hanson, M.Schiffer. The Structure of A Mutant Photosynthetic Reaction Center Shows Unexpected Changes in Main Chain Orientations and Quinone Position. Biochemistry V. 41 5998 2002.
ISSN: ISSN 0006-2960
PubMed: 11993994
DOI: 10.1021/BI0118963