Magnesium in PDB 8vtm: Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine

The structure of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine, PDB code: 8vtm was solved by K.Tran, I.Mathews, S.G.Boxer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.99 / 3.51
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	141.79, 141.79, 187.71, 90, 90, 120
R / Rfree (%)	22 / 26.1

The structure of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Iron	(Fe)	1 atom
Bromine	(Br)	1 atom

The binding sites of Magnesium atom in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine (pdb code 8vtm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine, PDB code: 8vtm:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg301 b:52.8 occ:1.00 MG L:BCL301 0.0 52.8 1.0 NE2 L:HIS153 1.9 62.2 1.0 ND L:BCL301 2.0 55.5 1.0 NB L:BCL301 2.1 58.4 1.0 NC L:BCL301 2.1 52.6 1.0 NA L:BCL301 2.2 56.4 1.0 CD2 L:HIS153 2.9 61.4 1.0 CE1 L:HIS153 2.9 60.5 1.0 C4D L:BCL301 3.0 58.7 1.0 C1B L:BCL301 3.1 56.6 1.0 C4B L:BCL301 3.1 57.8 1.0 C1C L:BCL301 3.1 56.7 1.0 C1D L:BCL301 3.1 52.7 1.0 C4A L:BCL301 3.1 58.8 1.0 C4C L:BCL301 3.2 50.0 1.0 C1A L:BCL301 3.2 60.5 1.0 CHB L:BCL301 3.4 59.6 1.0 CHC L:BCL301 3.4 59.8 1.0 CHA L:BCL301 3.5 59.6 1.0 CHD L:BCL301 3.5 50.5 1.0 ND1 L:HIS153 4.0 61.3 1.0 CG L:HIS153 4.0 61.2 1.0 C3D L:BCL301 4.2 56.6 1.0 C2D L:BCL301 4.3 55.5 1.0 C2B L:BCL301 4.3 53.3 1.0 C3B L:BCL301 4.3 53.6 1.0 C2C L:BCL301 4.4 52.0 1.0 C3A L:BCL301 4.4 56.7 1.0 C3C L:BCL301 4.5 51.6 1.0 C2A L:BCL301 4.5 59.0 1.0 CD1 L:LEU154 4.8 56.5 1.0 CBD L:BCL301 5.0 57.1 1.0 OBB M:BPH408 5.0 59.2 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg302 b:54.5 occ:1.00 MG L:BCL302 0.0 54.5 1.0 NE2 L:HIS173 1.9 52.5 1.0 ND L:BCL302 2.0 53.7 1.0 NB L:BCL302 2.1 51.3 1.0 NC L:BCL302 2.1 59.1 1.0 NA L:BCL302 2.2 53.9 1.0 CE1 L:HIS173 2.3 53.3 1.0 C4D L:BCL302 3.0 59.2 1.0 C4B L:BCL302 3.1 54.8 1.0 C1B L:BCL302 3.1 53.8 1.0 C1C L:BCL302 3.1 57.8 1.0 C4A L:BCL302 3.1 55.4 1.0 C1D L:BCL302 3.2 50.5 1.0 C4C L:BCL302 3.2 57.3 1.0 C1A L:BCL302 3.2 55.4 1.0 CD2 L:HIS173 3.2 51.7 1.0 CHC L:BCL302 3.4 56.6 1.0 CHB L:BCL302 3.4 54.9 1.0 CHA L:BCL302 3.5 60.4 1.0 CHD L:BCL302 3.5 54.3 1.0 CBB M:BCL401 3.5 60.6 1.0 ND1 L:HIS173 3.6 53.9 1.0 CAB M:BCL401 3.9 60.7 1.0 CG L:HIS173 4.0 51.6 1.0 OBB M:BCL401 4.1 61.2 1.0 C3D L:BCL302 4.2 58.5 1.0 C2B L:BCL302 4.3 55.2 1.0 C2D L:BCL302 4.3 53.6 1.0 C3B L:BCL302 4.3 55.8 1.0 C3A L:BCL302 4.4 52.5 1.0 C2C L:BCL302 4.5 55.6 1.0 C3C L:BCL302 4.5 56.1 1.0 C2A L:BCL302 4.5 54.4 1.0 CD2 L:PHE167 4.7 54.4 1.0 CMA L:BCL302 4.8 47.6 1.0 C3B M:BCL401 4.8 57.6 1.0 CBD L:BCL302 4.9 62.6 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg401 b:52.8 occ:1.00 MG M:BCL401 0.0 52.8 1.0 NE2 M:HIS202 1.9 58.1 1.0 ND M:BCL401 2.0 54.2 1.0 NB M:BCL401 2.1 56.5 1.0 NC M:BCL401 2.1 52.0 1.0 NA M:BCL401 2.2 52.8 1.0 CE1 M:HIS202 2.7 55.5 1.0 C4D M:BCL401 3.0 56.0 1.0 CD2 M:HIS202 3.1 56.5 1.0 C4B M:BCL401 3.1 54.3 1.0 C1B M:BCL401 3.1 59.0 1.0 C1C M:BCL401 3.1 53.8 1.0 C1D M:BCL401 3.2 51.9 1.0 C4A M:BCL401 3.2 51.2 1.0 C4C M:BCL401 3.2 53.8 1.0 C1A M:BCL401 3.2 52.7 1.0 CHC M:BCL401 3.4 54.0 1.0 CHB M:BCL401 3.4 53.5 1.0 CHA M:BCL401 3.5 52.6 1.0 CBB L:BCL302 3.5 47.8 1.0 CHD M:BCL401 3.5 53.9 1.0 ND1 M:HIS202 3.9 52.9 1.0 CG M:HIS202 4.1 53.8 1.0 C3D M:BCL401 4.2 56.4 1.0 C2B M:BCL401 4.3 58.4 1.0 C2D M:BCL401 4.3 52.5 1.0 C3B M:BCL401 4.3 57.6 1.0 CAB L:BCL302 4.4 56.5 1.0 C2C M:BCL401 4.4 51.4 1.0 C3A M:BCL401 4.5 51.3 1.0 C3C M:BCL401 4.5 49.1 1.0 C2A M:BCL401 4.5 53.9 1.0 CBD M:BCL401 4.8 51.8 1.0 C3B L:BCL302 4.9 55.8 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg409 b:59.2 occ:1.00 MG M:BCL409 0.0 59.2 1.0 NE2 M:HIS182 1.9 61.6 1.0 ND M:BCL409 2.0 59.2 1.0 NB M:BCL409 2.1 58.3 1.0 NC M:BCL409 2.1 56.4 1.0 NA M:BCL409 2.2 52.9 1.0 CD2 M:HIS182 2.9 61.9 1.0 CE1 M:HIS182 2.9 56.6 1.0 C4D M:BCL409 3.0 59.6 1.0 C4B M:BCL409 3.1 60.0 1.0 C1B M:BCL409 3.1 56.2 1.0 C1C M:BCL409 3.1 56.6 1.0 C1D M:BCL409 3.1 58.7 1.0 C4A M:BCL409 3.2 51.7 1.0 C4C M:BCL409 3.2 55.9 1.0 C1A M:BCL409 3.2 55.9 1.0 CHC M:BCL409 3.4 58.8 1.0 CHB M:BCL409 3.4 53.1 1.0 CHA M:BCL409 3.5 59.0 1.0 CHD M:BCL409 3.5 57.9 1.0 ND1 M:HIS182 4.0 54.5 1.0 CG M:HIS182 4.0 58.5 1.0 C3D M:BCL409 4.2 56.1 1.0 C2B M:BCL409 4.3 57.1 1.0 C2D M:BCL409 4.3 54.5 1.0 C3B M:BCL409 4.3 61.8 1.0 C2C M:BCL409 4.4 51.9 1.0 C3A M:BCL409 4.4 50.5 1.0 C3C M:BCL409 4.5 53.7 1.0 C2A M:BCL409 4.5 52.5 1.0 CBD M:BCL409 4.9 55.2 1.0

K.Tran, I.Mathews, S.G.Boxer. Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Bromophenylalanine To Be Published.