Magnesium in PDB 7q7j: Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary
Protein crystallography data
The structure of Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary, PDB code: 7q7j
was solved by
J.Lieske,
S.Guenther,
S.Saouane,
G.K.Selikhanov,
A.G.Gabdulkhakov,
A.Meents,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
46.99 /
2.69
|
Space group
|
P 42 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
102.3,
102.3,
237.91,
90,
90,
90
|
R / Rfree (%)
|
17.9 /
23.1
|
Other elements in 7q7j:
The structure of Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary also contains other interesting chemical elements:
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary
(pdb code 7q7j). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the
Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary, PDB code: 7q7j:
Jump to Magnesium binding site number:
1;
2;
3;
4;
Magnesium binding site 1 out
of 4 in 7q7j
Go back to
Magnesium Binding Sites List in 7q7j
Magnesium binding site 1 out
of 4 in the Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg302
b:32.9
occ:1.00
|
MG
|
L:BCL302
|
0.0
|
32.9
|
1.0
|
ND
|
L:BCL302
|
2.0
|
30.9
|
1.0
|
NB
|
L:BCL302
|
2.1
|
32.2
|
1.0
|
NC
|
L:BCL302
|
2.1
|
32.1
|
1.0
|
NA
|
L:BCL302
|
2.2
|
31.9
|
1.0
|
NE2
|
L:HIS153
|
2.2
|
34.4
|
1.0
|
C4D
|
L:BCL302
|
3.0
|
31.7
|
1.0
|
C4B
|
L:BCL302
|
3.1
|
32.6
|
1.0
|
C1B
|
L:BCL302
|
3.1
|
31.9
|
1.0
|
C1C
|
L:BCL302
|
3.1
|
32.5
|
1.0
|
C1D
|
L:BCL302
|
3.1
|
31.9
|
1.0
|
C4A
|
L:BCL302
|
3.1
|
31.9
|
1.0
|
C4C
|
L:BCL302
|
3.2
|
31.9
|
1.0
|
CE1
|
L:HIS153
|
3.2
|
35.7
|
1.0
|
C1A
|
L:BCL302
|
3.2
|
31.8
|
1.0
|
CD2
|
L:HIS153
|
3.2
|
35.4
|
1.0
|
HE1
|
L:HIS153
|
3.3
|
42.8
|
1.0
|
HD2
|
L:HIS153
|
3.4
|
42.4
|
1.0
|
CHC
|
L:BCL302
|
3.4
|
32.4
|
1.0
|
CHB
|
L:BCL302
|
3.4
|
31.8
|
1.0
|
CHA
|
L:BCL302
|
3.5
|
31.8
|
1.0
|
CHD
|
L:BCL302
|
3.5
|
32.6
|
1.0
|
HE2
|
M:TYR210
|
4.0
|
38.6
|
1.0
|
H202
|
L:BPH301
|
4.1
|
38.6
|
1.0
|
C3D
|
L:BCL302
|
4.2
|
33.5
|
1.0
|
HBB2
|
L:BPH301
|
4.2
|
31.0
|
1.0
|
C2D
|
L:BCL302
|
4.3
|
33.2
|
1.0
|
HBB3
|
L:BPH301
|
4.3
|
31.0
|
1.0
|
C2B
|
L:BCL302
|
4.3
|
31.6
|
1.0
|
HBC1
|
L:BCL302
|
4.3
|
37.8
|
1.0
|
HD12
|
L:LEU154
|
4.3
|
42.0
|
1.0
|
ND1
|
L:HIS153
|
4.3
|
37.1
|
1.0
|
C3B
|
L:BCL302
|
4.3
|
32.8
|
1.0
|
HD11
|
L:LEU154
|
4.3
|
42.0
|
1.0
|
HBA1
|
L:BCL302
|
4.4
|
42.1
|
1.0
|
CG
|
L:HIS153
|
4.4
|
36.6
|
1.0
|
C2C
|
L:BCL302
|
4.4
|
32.5
|
1.0
|
C3A
|
L:BCL302
|
4.4
|
31.4
|
1.0
|
H201
|
L:BPH301
|
4.5
|
38.6
|
1.0
|
C3C
|
L:BCL302
|
4.5
|
31.8
|
1.0
|
HHC
|
L:BCL302
|
4.5
|
38.9
|
1.0
|
HHB
|
L:BCL302
|
4.5
|
38.1
|
1.0
|
C2A
|
L:BCL302
|
4.5
|
32.1
|
1.0
|
HHD
|
L:BCL302
|
4.6
|
39.1
|
1.0
|
CBB
|
L:BPH301
|
4.6
|
25.9
|
1.0
|
HBB1
|
L:BPH301
|
4.7
|
31.0
|
1.0
|
HMA1
|
L:BCL302
|
4.7
|
36.1
|
1.0
|
HMC1
|
L:BCL302
|
4.7
|
39.4
|
1.0
|
CD1
|
L:LEU154
|
4.7
|
35.0
|
1.0
|
HBA2
|
L:BCL302
|
4.8
|
42.1
|
1.0
|
C20
|
L:BPH301
|
4.9
|
32.1
|
1.0
|
HBC3
|
L:BCL302
|
4.9
|
37.8
|
1.0
|
CE2
|
M:TYR210
|
4.9
|
32.2
|
1.0
|
CBD
|
L:BCL302
|
4.9
|
32.9
|
1.0
|
HD13
|
L:LEU154
|
4.9
|
42.0
|
1.0
|
HH
|
M:TYR210
|
5.0
|
39.7
|
1.0
|
|
Magnesium binding site 2 out
of 4 in 7q7j
Go back to
Magnesium Binding Sites List in 7q7j
Magnesium binding site 2 out
of 4 in the Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg303
b:29.3
occ:1.00
|
MG
|
L:BCL303
|
0.0
|
29.3
|
1.0
|
ND
|
L:BCL303
|
2.0
|
33.2
|
1.0
|
NB
|
L:BCL303
|
2.1
|
32.4
|
1.0
|
NC
|
L:BCL303
|
2.1
|
34.3
|
1.0
|
NE2
|
L:HIS173
|
2.1
|
42.0
|
1.0
|
NA
|
L:BCL303
|
2.2
|
31.3
|
1.0
|
HBB3
|
M:BCL402
|
2.7
|
43.7
|
1.0
|
CE1
|
L:HIS173
|
2.9
|
39.3
|
1.0
|
HE1
|
L:HIS173
|
2.9
|
47.2
|
1.0
|
C4D
|
L:BCL303
|
3.0
|
33.4
|
1.0
|
C4B
|
L:BCL303
|
3.1
|
33.7
|
1.0
|
C1B
|
L:BCL303
|
3.1
|
32.6
|
1.0
|
C1C
|
L:BCL303
|
3.1
|
36.2
|
1.0
|
C4A
|
L:BCL303
|
3.1
|
31.3
|
1.0
|
C1D
|
L:BCL303
|
3.2
|
34.5
|
1.0
|
C4C
|
L:BCL303
|
3.2
|
34.3
|
1.0
|
C1A
|
L:BCL303
|
3.2
|
31.7
|
1.0
|
CD2
|
L:HIS173
|
3.3
|
39.3
|
1.0
|
CHC
|
L:BCL303
|
3.4
|
34.9
|
1.0
|
HBB2
|
M:BCL402
|
3.4
|
43.7
|
1.0
|
CHB
|
L:BCL303
|
3.4
|
32.6
|
1.0
|
CBB
|
M:BCL402
|
3.5
|
36.5
|
1.0
|
CHA
|
L:BCL303
|
3.5
|
32.5
|
1.0
|
CHD
|
L:BCL303
|
3.5
|
34.9
|
1.0
|
HD2
|
L:HIS173
|
3.6
|
47.2
|
1.0
|
HD2
|
L:PHE167
|
4.1
|
57.5
|
1.0
|
CAB
|
M:BCL402
|
4.1
|
36.5
|
1.0
|
ND1
|
L:HIS173
|
4.1
|
39.4
|
1.0
|
C3D
|
L:BCL303
|
4.2
|
33.9
|
1.0
|
C2B
|
L:BCL303
|
4.3
|
31.8
|
1.0
|
CG
|
L:HIS173
|
4.3
|
38.8
|
1.0
|
C2D
|
L:BCL303
|
4.3
|
36.2
|
1.0
|
C3B
|
L:BCL303
|
4.3
|
33.7
|
1.0
|
HBB1
|
M:BCL402
|
4.3
|
43.7
|
1.0
|
C3A
|
L:BCL303
|
4.4
|
32.0
|
1.0
|
C2C
|
L:BCL303
|
4.4
|
36.7
|
1.0
|
HD11
|
L:ILE177
|
4.5
|
38.0
|
1.0
|
HHC
|
L:BCL303
|
4.5
|
41.9
|
1.0
|
C3C
|
L:BCL303
|
4.5
|
35.0
|
1.0
|
HHB
|
L:BCL303
|
4.5
|
39.1
|
1.0
|
C2A
|
L:BCL303
|
4.5
|
31.8
|
1.0
|
HHD
|
L:BCL303
|
4.6
|
41.9
|
1.0
|
OBB
|
M:BCL402
|
4.6
|
35.5
|
1.0
|
HMB2
|
M:BCL402
|
4.6
|
43.1
|
1.0
|
C3B
|
M:BCL402
|
4.7
|
36.8
|
1.0
|
HMA1
|
L:BCL303
|
4.7
|
38.0
|
1.0
|
HB3
|
L:PHE167
|
4.7
|
56.9
|
1.0
|
HMC1
|
L:BCL303
|
4.8
|
43.8
|
1.0
|
CD2
|
L:PHE167
|
4.8
|
47.9
|
1.0
|
HD1
|
L:HIS173
|
4.8
|
47.2
|
1.0
|
CBD
|
L:BCL303
|
5.0
|
31.6
|
1.0
|
|
Magnesium binding site 3 out
of 4 in 7q7j
Go back to
Magnesium Binding Sites List in 7q7j
Magnesium binding site 3 out
of 4 in the Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg402
b:36.6
occ:1.00
|
MG
|
M:BCL402
|
0.0
|
36.6
|
1.0
|
ND
|
M:BCL402
|
2.0
|
34.9
|
1.0
|
NB
|
M:BCL402
|
2.1
|
36.9
|
1.0
|
NC
|
M:BCL402
|
2.1
|
37.2
|
1.0
|
NA
|
M:BCL402
|
2.2
|
36.7
|
1.0
|
NE2
|
M:HIS202
|
2.4
|
27.5
|
1.0
|
C4D
|
M:BCL402
|
3.0
|
34.6
|
1.0
|
C4B
|
M:BCL402
|
3.1
|
36.0
|
1.0
|
C1C
|
M:BCL402
|
3.1
|
36.3
|
1.0
|
C1B
|
M:BCL402
|
3.1
|
36.5
|
1.0
|
C4A
|
M:BCL402
|
3.1
|
36.3
|
1.0
|
C4C
|
M:BCL402
|
3.1
|
35.9
|
1.0
|
C1D
|
M:BCL402
|
3.2
|
34.7
|
1.0
|
C1A
|
M:BCL402
|
3.2
|
35.4
|
1.0
|
CE1
|
M:HIS202
|
3.3
|
27.9
|
1.0
|
HBB1
|
L:BCL303
|
3.3
|
41.1
|
1.0
|
CD2
|
M:HIS202
|
3.3
|
28.1
|
1.0
|
HBB2
|
L:BCL303
|
3.4
|
41.1
|
1.0
|
CHC
|
M:BCL402
|
3.4
|
35.4
|
1.0
|
CHB
|
M:BCL402
|
3.4
|
36.6
|
1.0
|
HE1
|
M:HIS202
|
3.4
|
33.5
|
1.0
|
CHA
|
M:BCL402
|
3.4
|
34.6
|
1.0
|
HD2
|
M:HIS202
|
3.5
|
33.7
|
1.0
|
CHD
|
M:BCL402
|
3.5
|
34.5
|
1.0
|
CBB
|
L:BCL303
|
3.7
|
34.3
|
1.0
|
CAB
|
L:BCL303
|
3.8
|
33.3
|
1.0
|
OBB
|
L:BCL303
|
3.9
|
31.3
|
1.0
|
HD11
|
M:ILE206
|
4.0
|
39.8
|
1.0
|
C3D
|
M:BCL402
|
4.2
|
34.5
|
1.0
|
C2B
|
M:BCL402
|
4.3
|
36.1
|
1.0
|
C3B
|
M:BCL402
|
4.3
|
36.8
|
1.0
|
C2D
|
M:BCL402
|
4.3
|
35.2
|
1.0
|
C2C
|
M:BCL402
|
4.4
|
35.4
|
1.0
|
C3C
|
M:BCL402
|
4.4
|
36.8
|
1.0
|
ND1
|
M:HIS202
|
4.4
|
28.6
|
1.0
|
C3A
|
M:BCL402
|
4.4
|
35.2
|
1.0
|
C2A
|
M:BCL402
|
4.5
|
35.3
|
1.0
|
HHC
|
M:BCL402
|
4.5
|
42.4
|
1.0
|
CG
|
M:HIS202
|
4.5
|
28.9
|
1.0
|
HHB
|
M:BCL402
|
4.5
|
43.9
|
1.0
|
C3B
|
L:BCL303
|
4.6
|
33.7
|
1.0
|
HD12
|
M:LEU196
|
4.6
|
54.5
|
1.0
|
HHD
|
M:BCL402
|
4.6
|
41.4
|
1.0
|
HBB3
|
L:BCL303
|
4.7
|
41.1
|
1.0
|
HMC1
|
M:BCL402
|
4.7
|
41.3
|
1.0
|
CBD
|
M:BCL402
|
4.9
|
33.6
|
1.0
|
CD1
|
M:ILE206
|
4.9
|
33.2
|
1.0
|
HMA1
|
M:BCL402
|
4.9
|
39.9
|
1.0
|
HG13
|
M:ILE206
|
4.9
|
38.7
|
1.0
|
O2D
|
M:BCL402
|
4.9
|
31.2
|
1.0
|
HMB1
|
L:BCL303
|
5.0
|
36.2
|
1.0
|
H2A
|
M:BCL402
|
5.0
|
42.4
|
1.0
|
|
Magnesium binding site 4 out
of 4 in 7q7j
Go back to
Magnesium Binding Sites List in 7q7j
Magnesium binding site 4 out
of 4 in the Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Room Temperature Structure of the Rhodobacter Sphaeroides Photosynthetic Reaction Center F(M197)H Mutant at 75 Mpa Helium Gas Pressure in A Sapphire Capillary within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg403
b:30.1
occ:1.00
|
MG
|
M:BCL403
|
0.0
|
30.1
|
1.0
|
ND
|
M:BCL403
|
2.0
|
28.5
|
1.0
|
NB
|
M:BCL403
|
2.1
|
28.4
|
1.0
|
NC
|
M:BCL403
|
2.1
|
30.4
|
1.0
|
NA
|
M:BCL403
|
2.2
|
30.2
|
1.0
|
NE2
|
M:HIS182
|
2.2
|
36.1
|
1.0
|
C4D
|
M:BCL403
|
3.0
|
29.0
|
1.0
|
C4B
|
M:BCL403
|
3.1
|
30.0
|
1.0
|
C1B
|
M:BCL403
|
3.1
|
29.0
|
1.0
|
CE1
|
M:HIS182
|
3.1
|
38.7
|
1.0
|
C1C
|
M:BCL403
|
3.1
|
31.3
|
1.0
|
C1D
|
M:BCL403
|
3.1
|
29.1
|
1.0
|
C4A
|
M:BCL403
|
3.1
|
29.8
|
1.0
|
C4C
|
M:BCL403
|
3.2
|
30.9
|
1.0
|
C1A
|
M:BCL403
|
3.2
|
31.1
|
1.0
|
CD2
|
M:HIS182
|
3.2
|
38.2
|
1.0
|
HE1
|
M:HIS182
|
3.2
|
46.4
|
1.0
|
CHC
|
M:BCL403
|
3.4
|
30.0
|
1.0
|
CHB
|
M:BCL403
|
3.4
|
28.6
|
1.0
|
HD2
|
M:HIS182
|
3.4
|
45.8
|
1.0
|
CHA
|
M:BCL403
|
3.5
|
30.5
|
1.0
|
CHD
|
M:BCL403
|
3.5
|
29.8
|
1.0
|
H3A
|
M:OLC408
|
3.9
|
58.4
|
0.5
|
HM52
|
M:SPN409
|
4.0
|
59.3
|
0.6
|
HBB3
|
M:BPH304
|
4.1
|
33.0
|
1.0
|
C3D
|
M:BCL403
|
4.2
|
29.2
|
1.0
|
HE2
|
L:PHE181
|
4.2
|
44.1
|
1.0
|
ND1
|
M:HIS182
|
4.2
|
39.6
|
1.0
|
C2B
|
M:BCL403
|
4.3
|
29.8
|
1.0
|
C2D
|
M:BCL403
|
4.3
|
29.3
|
1.0
|
C3B
|
M:BCL403
|
4.3
|
32.2
|
1.0
|
CG
|
M:HIS182
|
4.3
|
39.1
|
1.0
|
HBA2
|
M:BCL403
|
4.3
|
47.2
|
1.0
|
HBB2
|
M:BPH304
|
4.4
|
33.0
|
1.0
|
C2C
|
M:BCL403
|
4.4
|
32.3
|
1.0
|
C3A
|
M:BCL403
|
4.4
|
31.4
|
1.0
|
C3C
|
M:BCL403
|
4.4
|
32.1
|
1.0
|
HHB
|
M:BCL403
|
4.5
|
34.3
|
1.0
|
HHC
|
M:BCL403
|
4.5
|
35.9
|
1.0
|
C2A
|
M:BCL403
|
4.5
|
32.7
|
1.0
|
HHD
|
M:BCL403
|
4.6
|
35.7
|
1.0
|
HMA1
|
M:BCL403
|
4.6
|
37.0
|
1.0
|
HBC1
|
M:BCL403
|
4.6
|
41.3
|
1.0
|
H141
|
M:SPN409
|
4.6
|
57.8
|
0.6
|
HD23
|
M:LEU183
|
4.7
|
53.5
|
1.0
|
CBB
|
M:BPH304
|
4.7
|
27.5
|
1.0
|
HMC1
|
M:BCL403
|
4.8
|
40.0
|
1.0
|
HM53
|
M:SPN409
|
4.9
|
59.3
|
0.6
|
CM5
|
M:SPN409
|
4.9
|
49.4
|
0.6
|
CBD
|
M:BCL403
|
4.9
|
30.8
|
1.0
|
HBB1
|
M:BPH304
|
4.9
|
33.0
|
1.0
|
C3
|
M:OLC408
|
4.9
|
48.7
|
0.5
|
H41
|
M:BCL402
|
4.9
|
45.2
|
1.0
|
H3C
|
M:BCL403
|
5.0
|
38.5
|
1.0
|
HD1
|
M:HIS182
|
5.0
|
47.5
|
1.0
|
|
Reference:
J.Lieske,
S.Saouane,
S.Guenther,
J.Meyer,
T.Pakendorf,
B.Reime,
A.Burkhardt,
E.Crosas,
J.Hakanpaeae,
K.Stachnik,
J.Sieg,
M.Rarey,
M.H.Abdellatif,
A.G.Gabdulkhakov,
G.K.Selikhanov,
H.N.Chapman,
A.Meents.
Fixed-Target High-Pressure Macromolecular Crystallography To Be Published.
Page generated: Thu Oct 3 04:59:41 2024
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