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Magnesium in PDB 1aij: Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State

Protein crystallography data

The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State, PDB code: 1aij was solved by M.H.B.Stowell, T.M.Mcphillips, S.M.Soltis, D.C.Rees, E.Abresch, G.Feher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.20
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 140.080, 140.080, 271.630, 90.00, 90.00, 90.00
R / Rfree (%) 21.6 / 27

Other elements in 1aij:

The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State (pdb code 1aij). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State, PDB code: 1aij:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 1aij

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Magnesium binding site 1 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


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 in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg282

b:22.2
occ:1.00
MG L:BCL282 0.0 22.2 1.0
ND L:BCL282 2.0 24.6 1.0
NC L:BCL282 2.1 21.2 1.0
NA L:BCL282 2.1 25.1 1.0
NB L:BCL282 2.1 25.6 1.0
NE2 L:HIS173 2.2 20.1 1.0
CE1 L:HIS173 2.9 16.0 1.0
C4A L:BCL282 3.0 24.6 1.0
C4D L:BCL282 3.1 26.9 1.0
C1B L:BCL282 3.1 24.0 1.0
C4C L:BCL282 3.1 20.2 1.0
C1D L:BCL282 3.1 24.6 1.0
C1C L:BCL282 3.1 23.0 1.0
C4B L:BCL282 3.1 30.1 1.0
C1A L:BCL282 3.2 23.9 1.0
CHB L:BCL282 3.4 22.3 1.0
CD2 L:HIS173 3.4 10.2 1.0
CHD L:BCL282 3.4 21.0 1.0
OBB M:BCL310 3.4 33.3 1.0
CHC L:BCL282 3.4 29.2 1.0
CHA L:BCL282 3.5 28.2 1.0
CAB M:BCL310 3.6 28.1 1.0
CBB M:BCL310 3.6 23.6 1.0
ND1 L:HIS173 4.2 8.4 1.0
C2D L:BCL282 4.2 29.8 1.0
C2B L:BCL282 4.3 27.5 1.0
C3D L:BCL282 4.3 29.9 1.0
C3B L:BCL282 4.3 22.1 1.0
C3A L:BCL282 4.4 21.2 1.0
C3B M:BCL310 4.4 23.8 1.0
CG L:HIS173 4.4 13.4 1.0
C3C L:BCL282 4.4 16.6 1.0
C2C L:BCL282 4.4 16.2 1.0
C2A L:BCL282 4.5 20.7 1.0
CD2 L:PHE167 4.8 20.6 1.0
CBD L:BCL282 5.0 25.8 1.0

Magnesium binding site 2 out of 8 in 1aij

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Magnesium binding site 2 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


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 in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg283

b:13.7
occ:1.00
MG L:BCL283 0.0 13.7 1.0
NC L:BCL283 2.0 13.2 1.0
ND L:BCL283 2.0 11.4 1.0
NA L:BCL283 2.0 12.1 1.0
NB L:BCL283 2.1 6.8 1.0
NE2 L:HIS153 2.3 24.9 1.0
C4A L:BCL283 3.0 17.4 1.0
C1C L:BCL283 3.0 13.7 1.0
C4D L:BCL283 3.0 10.3 1.0
C4C L:BCL283 3.0 18.2 1.0
C1B L:BCL283 3.1 7.6 1.0
C4B L:BCL283 3.1 12.2 1.0
C1D L:BCL283 3.1 15.1 1.0
C1A L:BCL283 3.1 17.9 1.0
CD2 L:HIS153 3.2 23.0 1.0
CE1 L:HIS153 3.3 22.0 1.0
CHB L:BCL283 3.4 10.7 1.0
CHC L:BCL283 3.4 8.3 1.0
CHD L:BCL283 3.4 15.4 1.0
CHA L:BCL283 3.4 14.4 1.0
CBB L:BPH285 4.1 18.3 1.0
C2D L:BCL283 4.3 13.9 1.0
C2B L:BCL283 4.3 10.6 1.0
C3B L:BCL283 4.3 13.8 1.0
C3D L:BCL283 4.3 14.1 1.0
C2C L:BCL283 4.4 21.8 1.0
C3C L:BCL283 4.4 23.9 1.0
C3A L:BCL283 4.4 19.9 1.0
ND1 L:HIS153 4.4 30.0 1.0
CG L:HIS153 4.4 30.4 1.0
C2A L:BCL283 4.4 17.9 1.0
CE2 M:TYR210 4.7 25.1 1.0
CBA L:BCL283 4.8 25.9 1.0
CBD L:BCL283 4.9 21.9 1.0

Magnesium binding site 3 out of 8 in 1aij

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Magnesium binding site 3 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


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 in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg309

b:21.9
occ:1.00
MG M:BCL309 0.0 21.9 1.0
ND M:BCL309 2.0 18.5 1.0
NC M:BCL309 2.1 20.8 1.0
NB M:BCL309 2.1 23.6 1.0
NA M:BCL309 2.1 24.0 1.0
NE2 M:HIS182 2.3 20.4 1.0
C4D M:BCL309 3.0 24.2 1.0
C4A M:BCL309 3.0 25.9 1.0
C1C M:BCL309 3.0 21.2 1.0
C1B M:BCL309 3.1 21.8 1.0
C4C M:BCL309 3.1 20.6 1.0
C1D M:BCL309 3.1 20.6 1.0
C4B M:BCL309 3.1 28.4 1.0
C1A M:BCL309 3.1 23.3 1.0
CD2 M:HIS182 3.1 23.9 1.0
CE1 M:HIS182 3.3 20.9 1.0
CHB M:BCL309 3.4 23.4 1.0
CHC M:BCL309 3.4 22.6 1.0
CHD M:BCL309 3.4 18.7 1.0
CHA M:BCL309 3.4 23.8 1.0
C2D M:BCL309 4.2 23.3 1.0
C2B M:BCL309 4.3 23.7 1.0
C3D M:BCL309 4.3 22.9 1.0
C3B M:BCL309 4.3 24.7 1.0
CG M:HIS182 4.3 18.9 1.0
C2C M:BCL309 4.4 23.0 1.0
ND1 M:HIS182 4.4 18.1 1.0
C3A M:BCL309 4.4 24.1 1.0
C3C M:BCL309 4.4 21.3 1.0
C2A M:BCL309 4.4 22.3 1.0
CBB L:BPH284 4.5 11.7 1.0
CE2 L:PHE181 4.5 18.9 1.0
CBD M:BCL309 4.9 23.0 1.0

Magnesium binding site 4 out of 8 in 1aij

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Magnesium binding site 4 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


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 in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg310

b:20.6
occ:1.00
MG M:BCL310 0.0 20.6 1.0
ND M:BCL310 2.0 17.4 1.0
NC M:BCL310 2.1 24.1 1.0
NB M:BCL310 2.1 20.2 1.0
NA M:BCL310 2.1 21.0 1.0
NE2 M:HIS202 2.3 20.2 1.0
C4D M:BCL310 3.0 24.4 1.0
C4A M:BCL310 3.0 20.3 1.0
C1C M:BCL310 3.1 19.9 1.0
C1B M:BCL310 3.1 24.4 1.0
CE1 M:HIS202 3.1 20.7 1.0
C4C M:BCL310 3.1 26.2 1.0
C1D M:BCL310 3.1 21.6 1.0
C4B M:BCL310 3.1 22.6 1.0
C1A M:BCL310 3.1 22.1 1.0
CD2 M:HIS202 3.3 19.4 1.0
CHB M:BCL310 3.4 24.8 1.0
CHC M:BCL310 3.4 20.3 1.0
CHD M:BCL310 3.4 22.6 1.0
CBB L:BCL282 3.4 23.1 1.0
CHA M:BCL310 3.5 24.7 1.0
CAB L:BCL282 3.5 22.0 1.0
OBB L:BCL282 3.6 28.2 1.0
C2D M:BCL310 4.2 16.6 1.0
ND1 M:HIS202 4.3 17.2 1.0
C2B M:BCL310 4.3 20.3 1.0
C3D M:BCL310 4.3 21.7 1.0
C3B M:BCL310 4.3 23.8 1.0
C3B L:BCL282 4.3 22.1 1.0
C2C M:BCL310 4.4 24.1 1.0
C3A M:BCL310 4.4 18.3 1.0
C3C M:BCL310 4.4 26.8 1.0
CG M:HIS202 4.4 14.8 1.0
C2A M:BCL310 4.4 21.1 1.0
CBD M:BCL310 4.9 18.8 1.0

Magnesium binding site 5 out of 8 in 1aij

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Magnesium binding site 5 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Mg282

b:30.0
occ:1.00
MG R:BCL282 0.0 30.0 1.0
ND R:BCL282 2.0 35.5 1.0
NC R:BCL282 2.1 31.1 1.0
NB R:BCL282 2.1 30.2 1.0
NA R:BCL282 2.1 33.7 1.0
NE2 R:HIS173 2.2 30.2 1.0
CE1 R:HIS173 3.0 26.4 1.0
C4A R:BCL282 3.0 29.4 1.0
C4D R:BCL282 3.1 36.9 1.0
C1B R:BCL282 3.1 27.0 1.0
C4C R:BCL282 3.1 30.2 1.0
C1C R:BCL282 3.1 30.0 1.0
C1D R:BCL282 3.1 37.5 1.0
C4B R:BCL282 3.1 30.1 1.0
C1A R:BCL282 3.2 28.7 1.0
CD2 R:HIS173 3.3 26.5 1.0
CHB R:BCL282 3.4 30.8 1.0
CBB S:BCL310 3.4 21.6 1.0
CHC R:BCL282 3.4 29.4 1.0
CHD R:BCL282 3.4 33.1 1.0
CHA R:BCL282 3.5 33.9 1.0
CAB S:BCL310 3.5 30.5 1.0
OBB S:BCL310 3.6 37.9 1.0
ND1 R:HIS173 4.2 25.3 1.0
C2D R:BCL282 4.3 39.8 1.0
C2B R:BCL282 4.3 26.4 1.0
C3D R:BCL282 4.3 36.8 1.0
C3B R:BCL282 4.3 26.4 1.0
C3B S:BCL310 4.3 28.3 1.0
CG R:HIS173 4.4 22.2 1.0
C3A R:BCL282 4.4 30.7 1.0
C2C R:BCL282 4.4 27.9 1.0
C3C R:BCL282 4.4 30.6 1.0
C2A R:BCL282 4.5 31.0 1.0
CD2 R:PHE167 4.8 30.8 1.0
CBD R:BCL282 5.0 31.6 1.0

Magnesium binding site 6 out of 8 in 1aij

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Magnesium binding site 6 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Mg283

b:21.9
occ:1.00
MG R:BCL283 0.0 21.9 1.0
NC R:BCL283 2.0 18.7 1.0
ND R:BCL283 2.0 19.8 1.0
NA R:BCL283 2.1 19.2 1.0
NB R:BCL283 2.1 17.4 1.0
NE2 R:HIS153 2.3 24.0 1.0
C4A R:BCL283 3.0 25.9 1.0
C4C R:BCL283 3.0 17.8 1.0
C1C R:BCL283 3.0 23.1 1.0
C4D R:BCL283 3.1 22.0 1.0
C1B R:BCL283 3.1 20.5 1.0
C1D R:BCL283 3.1 18.1 1.0
C4B R:BCL283 3.1 20.5 1.0
C1A R:BCL283 3.1 25.0 1.0
CD2 R:HIS153 3.3 21.9 1.0
CE1 R:HIS153 3.3 29.4 1.0
CHB R:BCL283 3.4 23.0 1.0
CHC R:BCL283 3.4 21.6 1.0
CHD R:BCL283 3.4 14.6 1.0
CHA R:BCL283 3.5 26.7 1.0
C2D R:BCL283 4.3 21.1 1.0
C2B R:BCL283 4.3 20.0 1.0
C3D R:BCL283 4.3 20.3 1.0
C3B R:BCL283 4.3 19.8 1.0
OBB R:BPH284 4.3 40.7 1.0
C2C R:BCL283 4.4 24.4 1.0
C3C R:BCL283 4.4 22.0 1.0
C3A R:BCL283 4.4 24.9 1.0
ND1 R:HIS153 4.4 31.2 1.0
CG R:HIS153 4.4 28.5 1.0
C2A R:BCL283 4.4 20.5 1.0
CE2 S:TYR210 4.6 29.9 1.0
CBA R:BCL283 4.9 29.8 1.0
CBC R:BCL283 4.9 22.3 1.0
CBD R:BCL283 5.0 27.3 1.0

Magnesium binding site 7 out of 8 in 1aij

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Magnesium binding site 7 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Mg309

b:24.3
occ:1.00
MG S:BCL309 0.0 24.3 1.0
ND S:BCL309 2.0 21.5 1.0
NC S:BCL309 2.1 20.6 1.0
NB S:BCL309 2.1 22.2 1.0
NA S:BCL309 2.1 26.6 1.0
NE2 S:HIS182 2.2 22.9 1.0
C4D S:BCL309 3.0 26.1 1.0
C4A S:BCL309 3.0 22.7 1.0
C1C S:BCL309 3.1 20.7 1.0
C1B S:BCL309 3.1 22.5 1.0
C4C S:BCL309 3.1 20.6 1.0
C1D S:BCL309 3.1 19.5 1.0
C4B S:BCL309 3.1 27.1 1.0
C1A S:BCL309 3.1 25.6 1.0
CD2 S:HIS182 3.2 18.1 1.0
CE1 S:HIS182 3.2 17.2 1.0
CHC S:BCL309 3.4 24.2 1.0
CHB S:BCL309 3.4 20.7 1.0
CHD S:BCL309 3.4 16.1 1.0
CHA S:BCL309 3.5 21.8 1.0
C2D S:BCL309 4.2 19.9 1.0
C2B S:BCL309 4.3 24.8 1.0
C3B S:BCL309 4.3 26.0 1.0
C3D S:BCL309 4.3 20.3 1.0
CG S:HIS182 4.3 23.1 1.0
ND1 S:HIS182 4.4 16.4 1.0
CBB S:BPH311 4.4 18.7 1.0
C2C S:BCL309 4.4 24.1 1.0
C3C S:BCL309 4.4 19.8 1.0
C3A S:BCL309 4.4 26.1 1.0
C2A S:BCL309 4.4 23.6 1.0
CE2 R:PHE181 4.8 23.8 1.0
CBD S:BCL309 4.9 18.6 1.0

Magnesium binding site 8 out of 8 in 1aij

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Magnesium binding site 8 out of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Neutral Dqaqb State within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Mg310

b:26.2
occ:1.00
MG S:BCL310 0.0 26.2 1.0
ND S:BCL310 2.0 29.5 1.0
NC S:BCL310 2.1 28.8 1.0
NB S:BCL310 2.1 27.4 1.0
NA S:BCL310 2.1 25.4 1.0
NE2 S:HIS202 2.2 25.6 1.0
C4D S:BCL310 3.0 29.3 1.0
C4A S:BCL310 3.1 24.2 1.0
C1C S:BCL310 3.1 33.5 1.0
C1B S:BCL310 3.1 26.0 1.0
C4C S:BCL310 3.1 24.7 1.0
C1D S:BCL310 3.1 26.0 1.0
C4B S:BCL310 3.1 30.4 1.0
CE1 S:HIS202 3.1 19.6 1.0
C1A S:BCL310 3.1 25.1 1.0
CD2 S:HIS202 3.3 17.3 1.0
CHB S:BCL310 3.4 25.5 1.0
CHC S:BCL310 3.4 33.1 1.0
CHD S:BCL310 3.4 22.0 1.0
CHA S:BCL310 3.4 29.6 1.0
CBB R:BCL282 3.5 20.5 1.0
CAB R:BCL282 3.5 26.9 1.0
OBB R:BCL282 3.5 23.9 1.0
C2D S:BCL310 4.2 28.7 1.0
C2B S:BCL310 4.3 23.3 1.0
ND1 S:HIS202 4.3 19.0 1.0
C3D S:BCL310 4.3 28.4 1.0
C3B R:BCL282 4.3 26.4 1.0
C3B S:BCL310 4.3 28.3 1.0
CG S:HIS202 4.4 14.8 1.0
C2C S:BCL310 4.4 30.2 1.0
C3A S:BCL310 4.4 28.6 1.0
C3C S:BCL310 4.4 24.3 1.0
C2A S:BCL310 4.4 25.6 1.0
CBD S:BCL310 4.9 28.1 1.0
C2B R:BCL282 5.0 26.4 1.0

Reference:

M.H.Stowell, T.M.Mcphillips, D.C.Rees, S.M.Soltis, E.Abresch, G.Feher. Light-Induced Structural Changes in Photosynthetic Reaction Center: Implications For Mechanism of Electron-Proton Transfer. Science V. 276 812 1997.
ISSN: ISSN 0036-8075
PubMed: 9115209
DOI: 10.1126/SCIENCE.276.5313.812
Page generated: Tue Aug 13 02:03:38 2024

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