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Magnesium in PDB 2x5v: 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation.

Protein crystallography data

The structure of 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation., PDB code: 2x5v was solved by A.B.Wohri, G.Katona, L.C.Johansson, E.Fritz, E.Malmerberg, M.Andersson, J.Vincent, M.Eklund, M.Cammarata, M.Wulff, J.Davidsson, G.Groenhof, R.Neutze, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.18 / 3.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 85.693, 143.470, 177.998, 90.00, 90.00, 90.00
R / Rfree (%) 27.7 / 31.9

Other elements in 2x5v:

The structure of 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation. also contains other interesting chemical elements:

Iron (Fe) 5 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation. (pdb code 2x5v). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation., PDB code: 2x5v:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 2x5v

Go back to Magnesium Binding Sites List in 2x5v
Magnesium binding site 1 out of 4 in the 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation. within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg1274

b:13.1
occ:1.00
MG L:BCB1274 0.0 13.1 1.0
NA L:BCB1274 2.0 13.0 1.0
NC L:BCB1274 2.0 12.6 1.0
NB L:BCB1274 2.0 12.4 1.0
ND L:BCB1274 2.1 12.9 1.0
NE2 L:HIS173 2.4 16.5 1.0
C1A L:BCB1274 3.0 13.2 1.0
C4A L:BCB1274 3.0 12.7 1.0
C4D L:BCB1274 3.1 12.4 1.0
C1B L:BCB1274 3.1 12.4 1.0
C4B L:BCB1274 3.1 12.0 1.0
C4C L:BCB1274 3.1 12.6 1.0
C1C L:BCB1274 3.1 12.8 1.0
C1D L:BCB1274 3.1 12.4 1.0
OBB M:BCB1325 3.1 18.3 1.0
CE1 L:HIS173 3.2 17.7 1.0
CAB M:BCB1325 3.3 17.4 1.0
CHB L:BCB1274 3.4 12.5 1.0
CHA L:BCB1274 3.4 11.9 1.0
CHC L:BCB1274 3.5 12.1 1.0
CHD L:BCB1274 3.5 12.8 1.0
CD2 L:HIS173 3.5 17.1 1.0
CBB M:BCB1325 3.6 16.3 1.0
C3B M:BCB1325 4.2 17.6 1.0
C2A L:BCB1274 4.3 14.2 1.0
C3A L:BCB1274 4.3 13.4 1.0
C3D L:BCB1274 4.3 11.9 1.0
C2D L:BCB1274 4.3 11.7 1.0
ND1 L:HIS173 4.3 17.9 1.0
C3C L:BCB1274 4.4 12.6 1.0
C3B L:BCB1274 4.4 11.7 1.0
C2B L:BCB1274 4.4 11.9 1.0
CD1 L:TRP167 4.4 18.6 1.0
C2C L:BCB1274 4.5 12.4 1.0
NE1 L:TRP167 4.5 19.0 1.0
CG L:HIS173 4.6 18.2 1.0
CBD L:BCB1274 4.9 11.6 1.0
C2B M:BCB1325 4.9 17.6 1.0
C4B M:BCB1325 5.0 18.1 1.0

Magnesium binding site 2 out of 4 in 2x5v

Go back to Magnesium Binding Sites List in 2x5v
Magnesium binding site 2 out of 4 in the 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation. within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg1275

b:22.2
occ:1.00
MG L:BCB1275 0.0 22.2 1.0
NA L:BCB1275 2.0 20.9 1.0
NB L:BCB1275 2.0 20.8 1.0
NC L:BCB1275 2.1 21.1 1.0
ND L:BCB1275 2.1 21.2 1.0
NE2 L:HIS153 2.5 21.2 1.0
C1A L:BCB1275 3.0 21.7 1.0
C4A L:BCB1275 3.0 20.5 1.0
C4D L:BCB1275 3.0 21.8 1.0
C4B L:BCB1275 3.1 21.3 1.0
C1B L:BCB1275 3.1 20.7 1.0
C1C L:BCB1275 3.1 21.0 1.0
C4C L:BCB1275 3.1 20.5 1.0
C1D L:BCB1275 3.1 21.0 1.0
CD2 L:HIS153 3.4 21.1 1.0
CHB L:BCB1275 3.4 20.9 1.0
CE1 L:HIS153 3.4 21.3 1.0
CHA L:BCB1275 3.4 22.1 1.0
CHC L:BCB1275 3.4 21.3 1.0
CHD L:BCB1275 3.5 20.3 1.0
CE2 M:TYR208 4.2 17.0 1.0
C2A L:BCB1275 4.3 21.5 1.0
OBB L:BPB1276 4.3 28.5 1.0
C3A L:BCB1275 4.3 20.6 1.0
C3D L:BCB1275 4.3 22.0 1.0
C2D L:BCB1275 4.4 21.4 1.0
C3C L:BCB1275 4.4 20.2 1.0
C3B L:BCB1275 4.4 20.6 1.0
C2B L:BCB1275 4.4 20.2 1.0
C2C L:BCB1275 4.5 20.9 1.0
ND1 L:HIS153 4.5 21.1 1.0
CG L:HIS153 4.5 20.9 1.0
CD2 M:TYR208 4.9 16.6 1.0
CBA L:BCB1275 4.9 22.1 1.0
CBD L:BCB1275 4.9 22.8 1.0
C20 L:BPB1276 5.0 29.8 1.0

Magnesium binding site 3 out of 4 in 2x5v

Go back to Magnesium Binding Sites List in 2x5v
Magnesium binding site 3 out of 4 in the 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation. within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg1324

b:21.0
occ:1.00
MG M:BCB1324 0.0 21.0 1.0
NA M:BCB1324 2.0 20.6 1.0
ND M:BCB1324 2.1 19.0 1.0
NC M:BCB1324 2.1 20.1 1.0
NB M:BCB1324 2.1 20.3 1.0
NE2 M:HIS180 2.6 20.1 1.0
C1A M:BCB1324 2.9 21.3 1.0
C4A M:BCB1324 3.0 20.4 1.0
C4D M:BCB1324 3.0 19.5 1.0
C4B M:BCB1324 3.1 20.1 1.0
C1B M:BCB1324 3.1 20.1 1.0
C1C M:BCB1324 3.1 19.9 1.0
C4C M:BCB1324 3.1 19.6 1.0
C1D M:BCB1324 3.1 18.5 1.0
CHA M:BCB1324 3.4 20.3 1.0
CHB M:BCB1324 3.4 19.9 1.0
CHC M:BCB1324 3.4 19.7 1.0
CD2 M:HIS180 3.5 20.2 1.0
CHD M:BCB1324 3.5 19.1 1.0
CE1 M:HIS180 3.6 19.7 1.0
OBB M:BPB1326 4.2 26.9 1.0
C2A M:BCB1324 4.3 22.4 1.0
C3A M:BCB1324 4.3 21.1 1.0
C3D M:BCB1324 4.3 19.1 1.0
C2D M:BCB1324 4.4 18.5 1.0
C3B M:BCB1324 4.4 20.6 1.0
C3C M:BCB1324 4.4 19.1 1.0
C2B M:BCB1324 4.4 20.1 1.0
C2C M:BCB1324 4.5 19.6 1.0
CBA M:BCB1324 4.6 26.7 1.0
CG M:HIS180 4.7 20.2 1.0
ND1 M:HIS180 4.7 19.4 1.0
CE2 L:PHE181 4.7 18.6 1.0
CBD M:BCB1324 4.9 19.8 1.0

Magnesium binding site 4 out of 4 in 2x5v

Go back to Magnesium Binding Sites List in 2x5v
Magnesium binding site 4 out of 4 in the 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of 80 Microsecond Laue Diffraction Snapshot From Crystals of A Photosynthetic Reaction Centre 3 Millisecond Following Photoactivation. within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg1325

b:18.8
occ:1.00
MG M:BCB1325 0.0 18.8 1.0
NA M:BCB1325 2.0 17.6 1.0
NB M:BCB1325 2.0 17.9 1.0
NC M:BCB1325 2.0 18.0 1.0
ND M:BCB1325 2.1 17.0 1.0
NE2 M:HIS200 2.5 22.3 1.0
C1A M:BCB1325 3.0 18.1 1.0
C4A M:BCB1325 3.0 18.3 1.0
C4D M:BCB1325 3.0 17.5 1.0
C1B M:BCB1325 3.0 18.0 1.0
C4B M:BCB1325 3.1 18.1 1.0
C1C M:BCB1325 3.1 17.6 1.0
C4C M:BCB1325 3.1 17.6 1.0
C1D M:BCB1325 3.1 17.1 1.0
CHB M:BCB1325 3.3 18.4 1.0
CHA M:BCB1325 3.4 17.2 1.0
CD2 M:HIS200 3.4 22.9 1.0
CHC M:BCB1325 3.4 17.5 1.0
CE1 M:HIS200 3.5 23.3 1.0
CHD M:BCB1325 3.5 17.5 1.0
CAB L:BCB1274 3.6 10.3 1.0
CBB L:BCB1274 3.6 10.6 1.0
OBB L:BCB1274 3.6 10.0 1.0
C2A M:BCB1325 4.3 19.2 1.0
C3A M:BCB1325 4.3 19.0 1.0
C3B L:BCB1274 4.3 11.7 1.0
C3D M:BCB1325 4.3 17.8 1.0
C3C M:BCB1325 4.4 17.4 1.0
C2D M:BCB1325 4.4 17.6 1.0
C3B M:BCB1325 4.4 17.6 1.0
C2B M:BCB1325 4.4 17.6 1.0
C2C M:BCB1325 4.4 17.9 1.0
CG M:HIS200 4.6 23.3 1.0
ND1 M:HIS200 4.6 23.2 1.0
CBD M:BCB1325 4.8 17.2 1.0

Reference:

A.B.Wohri, G.Katona, L.C.Johansson, E.Fritz, E.Malmerberg, M.Andersson, J.Vincent, M.Eklund, M.Cammarata, M.Wulff, J.Davidsson, G.Groenhof, R.Neutze. Light-Induced Structural Changes in A Photosynthetic Reaction Center Caught By Laue Diffraction. Science V. 328 630 2010.
ISSN: ISSN 0036-8075
PubMed: 20431017
DOI: 10.1126/SCIENCE.1186159
Page generated: Wed Aug 14 06:59:43 2024

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