Magnesium in PDB 1z9j: Photosynthetic Reaction Center From Rhodobacter Sphaeroides

The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides, PDB code: 1z9j was solved by M.Thielges, G.Uyeda, A.Camara-Artigas, L.Kalman, J.C.Williams, J.P.Allen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.96 / 4.50
Space group	P 42 2 2
Cell size a, b, c (Å), α, β, γ (°)	203.840, 203.840, 119.890, 90.00, 90.00, 90.00
R / Rfree (%)	29.9 / 33.8

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

Manganese	(Mn)	1 atom
Iron	(Fe)	1 atom

The binding sites of Magnesium atom in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides (pdb code 1z9j). 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 Rhodobacter Sphaeroides, PDB code: 1z9j:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Photosynthetic 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 Photosynthetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg850 b:90.0 occ:1.00 MG A:BCL850 0.0 90.0 1.0 ND A:BCL850 2.0 90.0 1.0 NA A:BCL850 2.0 90.0 1.0 NC A:BCL850 2.1 90.0 1.0 NB A:BCL850 2.1 90.0 1.0 C4A A:BCL850 3.0 90.0 1.0 C4D A:BCL850 3.0 90.0 1.0 C1B A:BCL850 3.0 90.0 1.0 C1D A:BCL850 3.0 90.0 1.0 C1C A:BCL850 3.1 90.0 1.0 C4C A:BCL850 3.1 90.0 1.0 C4B A:BCL850 3.1 90.0 1.0 C1A A:BCL850 3.1 90.0 1.0 NE2 B:HIS182 3.2 90.0 1.0 CHB A:BCL850 3.3 90.0 1.0 CHC A:BCL850 3.3 90.0 1.0 CHD A:BCL850 3.4 90.0 1.0 CHA A:BCL850 3.5 90.0 1.0 CD2 B:HIS182 3.8 90.0 1.0 C2D A:BCL850 4.2 90.0 1.0 C2B A:BCL850 4.3 90.0 1.0 C3D A:BCL850 4.3 90.0 1.0 C3A A:BCL850 4.3 90.0 1.0 CE1 B:HIS182 4.3 90.0 1.0 C2C A:BCL850 4.4 90.0 1.0 C3B A:BCL850 4.4 90.0 1.0 C3C A:BCL850 4.4 90.0 1.0 C2A A:BCL850 4.4 90.0 1.0 CBD A:BCL850 5.0 90.0 1.0 CAA A:BCL850 5.0 90.0 1.0

Magnesium binding site 2 out of 4 in the Photosynthetic 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 Photosynthetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg851 b:90.0 occ:1.00 MG A:BCL851 0.0 90.0 1.0 ND A:BCL851 2.0 90.0 1.0 NA A:BCL851 2.1 90.0 1.0 NC A:BCL851 2.1 90.0 1.0 NB A:BCL851 2.1 90.0 1.0 NE2 A:HIS173 2.6 90.0 1.0 C4A A:BCL851 3.0 90.0 1.0 C4D A:BCL851 3.0 90.0 1.0 C1B A:BCL851 3.0 90.0 1.0 C1D A:BCL851 3.1 90.0 1.0 C1C A:BCL851 3.1 90.0 1.0 C4B A:BCL851 3.1 90.0 1.0 C4C A:BCL851 3.1 90.0 1.0 C1A A:BCL851 3.2 90.0 1.0 CHB A:BCL851 3.3 90.0 1.0 CHC A:BCL851 3.3 90.0 1.0 CD2 A:HIS173 3.4 90.0 1.0 CHA A:BCL851 3.4 90.0 1.0 CHD A:BCL851 3.4 90.0 1.0 CE1 A:HIS173 3.7 90.0 1.0 OBB B:BCL852 3.8 90.0 1.0 CAB B:BCL852 3.9 90.0 1.0 CBB B:BCL852 4.1 90.0 1.0 C2D A:BCL851 4.2 90.0 1.0 C3D A:BCL851 4.2 90.0 1.0 C2B A:BCL851 4.2 90.0 1.0 C3A A:BCL851 4.3 90.0 1.0 C3B A:BCL851 4.4 90.0 1.0 C2C A:BCL851 4.4 90.0 1.0 C3C A:BCL851 4.4 90.0 1.0 C2A A:BCL851 4.4 90.0 1.0 C3B B:BCL852 4.5 90.0 1.0 CG A:HIS173 4.6 90.0 1.0 ND1 A:HIS173 4.7 90.0 1.0 CBD A:BCL851 4.9 90.0 1.0

Magnesium binding site 3 out of 4 in the Photosynthetic 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 Photosynthetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg852 b:90.0 occ:1.00 MG B:BCL852 0.0 90.0 1.0 ND B:BCL852 2.0 90.0 1.0 NB B:BCL852 2.1 90.0 1.0 NC B:BCL852 2.1 90.0 1.0 NA B:BCL852 2.1 90.0 1.0 NE2 B:HIS202 2.7 90.0 1.0 C1B B:BCL852 3.0 90.0 1.0 C4D B:BCL852 3.0 90.0 1.0 C4A B:BCL852 3.0 90.0 1.0 C1D B:BCL852 3.0 90.0 1.0 C1C B:BCL852 3.1 90.0 1.0 C4B B:BCL852 3.1 90.0 1.0 C4C B:BCL852 3.1 90.0 1.0 C1A B:BCL852 3.2 90.0 1.0 CHB B:BCL852 3.3 90.0 1.0 CHC B:BCL852 3.3 90.0 1.0 CHD B:BCL852 3.4 90.0 1.0 CHA B:BCL852 3.5 90.0 1.0 CE1 B:HIS202 3.6 90.0 1.0 CAB A:BCL851 3.7 90.0 1.0 CD2 B:HIS202 3.7 90.0 1.0 OBB A:BCL851 3.7 90.0 1.0 CBB A:BCL851 3.7 90.0 1.0 C2D B:BCL852 4.2 90.0 1.0 C2B B:BCL852 4.2 90.0 1.0 C3D B:BCL852 4.3 90.0 1.0 C3B B:BCL852 4.3 90.0 1.0 C3A B:BCL852 4.4 90.0 1.0 C3B A:BCL851 4.4 90.0 1.0 C3C B:BCL852 4.4 90.0 1.0 C2C B:BCL852 4.4 90.0 1.0 C2A B:BCL852 4.5 90.0 1.0 CD1 B:ILE206 4.8 90.0 1.0 ND1 B:HIS202 4.8 90.0 1.0 CG B:HIS202 4.8 90.0 1.0 CBD B:BCL852 5.0 90.0 1.0

Magnesium binding site 4 out of 4 in the Photosynthetic 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 Photosynthetic Reaction Center From Rhodobacter Sphaeroides within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg853 b:90.0 occ:1.00 MG B:BCL853 0.0 90.0 1.0 ND B:BCL853 2.0 90.0 1.0 NC B:BCL853 2.0 90.0 1.0 NA B:BCL853 2.1 90.0 1.0 NB B:BCL853 2.1 90.0 1.0 NE2 A:HIS153 2.8 90.0 1.0 C4A B:BCL853 3.0 90.0 1.0 C1D B:BCL853 3.0 90.0 1.0 C1B B:BCL853 3.0 90.0 1.0 C4D B:BCL853 3.0 90.0 1.0 C1C B:BCL853 3.0 90.0 1.0 C4C B:BCL853 3.0 90.0 1.0 C4B B:BCL853 3.1 90.0 1.0 C1A B:BCL853 3.2 90.0 1.0 CHB B:BCL853 3.3 90.0 1.0 CHC B:BCL853 3.3 90.0 1.0 CHD B:BCL853 3.4 90.0 1.0 CHA B:BCL853 3.5 90.0 1.0 CD2 A:HIS153 3.5 90.0 1.0 CE1 A:HIS153 3.9 90.0 1.0 C2D B:BCL853 4.2 90.0 1.0 C2B B:BCL853 4.3 90.0 1.0 C3D B:BCL853 4.3 90.0 1.0 C3A B:BCL853 4.3 90.0 1.0 C3C B:BCL853 4.3 90.0 1.0 C2C B:BCL853 4.3 90.0 1.0 C3B B:BCL853 4.4 90.0 1.0 C2A B:BCL853 4.4 90.0 1.0 OBB A:BPH855 4.6 90.0 1.0 CE2 B:TYR210 4.8 90.0 1.0 CG A:HIS153 4.8 90.0 1.0 CAA B:BCL853 4.8 90.0 1.0 ND1 A:HIS153 4.9 90.0 1.0 OH B:TYR210 4.9 90.0 1.0 CBD B:BCL853 5.0 90.0 1.0

M.Thielges, G.Uyeda, A.Camara-Artigas, L.Kalman, J.C.Williams, J.P.Allen. Design of A Redox-Linked Active Metal Site: Manganese Bound to Bacterial Reaction Centers at A Site Resembling That of Photosystem II Biochemistry V. 44 7389 2005.
ISSN: ISSN 0006-2960
PubMed: 15895982
DOI: 10.1021/BI050377N