Magnesium in PDB 8wdu: Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
Other elements in 8wdu:
The structure of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density also contains other interesting chemical elements:
Magnesium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Page 3, Binding sites: 21 -
30;
Page 4, Binding sites: 31 -
37;
Binding sites:
The binding sites of Magnesium atom in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
(pdb code 8wdu). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 37 binding sites of Magnesium where determined in the
Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density, PDB code: 8wdu:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 1 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg405
b:51.1
occ:1.00
|
OE1
|
C:GLN183
|
2.0
|
41.8
|
1.0
|
|
O
|
M:HOH502
|
2.2
|
43.7
|
1.0
|
|
OE2
|
M:GLU96
|
2.3
|
55.4
|
1.0
|
|
O
|
M:HOH501
|
2.3
|
49.4
|
1.0
|
|
OE1
|
M:GLU96
|
2.5
|
53.2
|
1.0
|
|
OE1
|
C:GLU230
|
2.5
|
50.8
|
1.0
|
|
CD
|
C:GLN183
|
2.6
|
33.8
|
1.0
|
|
O
|
C:HOH504
|
2.7
|
38.8
|
1.0
|
|
CD
|
M:GLU96
|
2.7
|
48.3
|
1.0
|
|
O
|
C:HOH557
|
2.9
|
39.8
|
1.0
|
|
NE2
|
C:GLN183
|
3.0
|
33.3
|
1.0
|
|
OD1
|
C:ASN184
|
3.3
|
38.9
|
1.0
|
|
CD
|
C:GLU230
|
3.5
|
49.2
|
1.0
|
|
OE2
|
C:GLU230
|
3.6
|
49.5
|
1.0
|
|
CG
|
C:GLN183
|
3.8
|
22.8
|
1.0
|
|
CG
|
M:PRO176
|
4.2
|
34.3
|
1.0
|
|
CG
|
C:ASN184
|
4.2
|
27.1
|
1.0
|
|
O
|
C:HOH578
|
4.2
|
43.0
|
1.0
|
|
CG
|
M:GLU96
|
4.3
|
36.9
|
1.0
|
|
ND2
|
C:ASN184
|
4.4
|
36.3
|
1.0
|
|
O
|
C:HOH590
|
4.4
|
47.4
|
1.0
|
|
CB
|
C:GLN183
|
4.7
|
27.6
|
1.0
|
|
CB
|
M:PRO176
|
4.8
|
25.7
|
1.0
|
|
CG
|
C:GLU230
|
4.9
|
24.6
|
1.0
|
|
O
|
M:PRO181
|
4.9
|
37.6
|
1.0
|
|
O
|
C:ALA194
|
5.0
|
35.6
|
1.0
|
|
CB
|
M:PRO181
|
5.0
|
25.6
|
1.0
|
|
Magnesium binding site 2 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 2 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg301
b:32.3
occ:1.00
|
MG
|
L:BCL301
|
0.0
|
32.3
|
1.0
|
|
NC
|
L:BCL301
|
2.0
|
42.2
|
1.0
|
|
NA
|
L:BCL301
|
2.0
|
43.4
|
1.0
|
|
ND
|
L:BCL301
|
2.0
|
31.2
|
1.0
|
|
NB
|
L:BCL301
|
2.1
|
31.3
|
1.0
|
|
NE2
|
L:HIS179
|
2.2
|
27.2
|
1.0
|
|
C4D
|
L:BCL301
|
3.0
|
35.0
|
1.0
|
|
CE1
|
L:HIS179
|
3.0
|
17.9
|
1.0
|
|
C4A
|
L:BCL301
|
3.0
|
38.1
|
1.0
|
|
C4C
|
L:BCL301
|
3.0
|
34.4
|
1.0
|
|
C1A
|
L:BCL301
|
3.0
|
32.3
|
1.0
|
|
C1C
|
L:BCL301
|
3.0
|
37.0
|
1.0
|
|
C1B
|
L:BCL301
|
3.1
|
30.4
|
1.0
|
|
C4B
|
L:BCL301
|
3.1
|
28.2
|
1.0
|
|
C1D
|
L:BCL301
|
3.1
|
35.0
|
1.0
|
|
CD2
|
L:HIS179
|
3.3
|
26.6
|
1.0
|
|
CHB
|
L:BCL301
|
3.4
|
32.0
|
1.0
|
|
CHC
|
L:BCL301
|
3.4
|
32.2
|
1.0
|
|
CHA
|
L:BCL301
|
3.4
|
34.1
|
1.0
|
|
CHD
|
L:BCL301
|
3.5
|
34.1
|
1.0
|
|
CAB
|
M:BCL403
|
3.5
|
17.2
|
1.0
|
|
CBB
|
M:BCL403
|
3.6
|
27.2
|
1.0
|
|
OBB
|
M:BCL403
|
3.6
|
30.9
|
1.0
|
|
ND1
|
L:HIS179
|
4.1
|
14.1
|
1.0
|
|
C3D
|
L:BCL301
|
4.2
|
40.1
|
1.0
|
|
C3B
|
M:BCL403
|
4.3
|
17.7
|
1.0
|
|
C3A
|
L:BCL301
|
4.3
|
31.4
|
1.0
|
|
C3C
|
L:BCL301
|
4.3
|
36.8
|
1.0
|
|
C2A
|
L:BCL301
|
4.3
|
37.9
|
1.0
|
|
C2C
|
L:BCL301
|
4.3
|
38.7
|
1.0
|
|
CG
|
L:HIS179
|
4.4
|
23.1
|
1.0
|
|
C3B
|
L:BCL301
|
4.4
|
27.1
|
1.0
|
|
C2B
|
L:BCL301
|
4.4
|
28.1
|
1.0
|
|
C2D
|
L:BCL301
|
4.4
|
35.9
|
1.0
|
|
CD2
|
L:PHE173
|
4.6
|
7.2
|
1.0
|
|
CE2
|
L:PHE173
|
4.8
|
12.1
|
1.0
|
|
CBD
|
L:BCL301
|
4.9
|
36.5
|
1.0
|
|
CMA
|
L:BCL301
|
5.0
|
38.2
|
1.0
|
|
Magnesium binding site 3 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 3 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg308
b:29.2
occ:1.00
|
MG
|
L:BCL308
|
0.0
|
29.2
|
1.0
|
|
NA
|
L:BCL308
|
2.0
|
34.4
|
1.0
|
|
NC
|
L:BCL308
|
2.0
|
38.4
|
1.0
|
|
ND
|
L:BCL308
|
2.0
|
27.6
|
1.0
|
|
NB
|
L:BCL308
|
2.0
|
24.9
|
1.0
|
|
NE2
|
M:HIS182
|
2.5
|
17.3
|
1.0
|
|
C4D
|
L:BCL308
|
2.9
|
20.0
|
1.0
|
|
C1A
|
L:BCL308
|
3.0
|
33.2
|
1.0
|
|
C4A
|
L:BCL308
|
3.0
|
27.4
|
1.0
|
|
C4C
|
L:BCL308
|
3.0
|
28.2
|
1.0
|
|
C1C
|
L:BCL308
|
3.0
|
28.8
|
1.0
|
|
C1B
|
L:BCL308
|
3.0
|
20.1
|
1.0
|
|
C4B
|
L:BCL308
|
3.1
|
21.1
|
1.0
|
|
C1D
|
L:BCL308
|
3.2
|
24.5
|
1.0
|
|
CHB
|
L:BCL308
|
3.3
|
24.1
|
1.0
|
|
CD2
|
M:HIS182
|
3.4
|
11.9
|
1.0
|
|
CHA
|
L:BCL308
|
3.4
|
26.1
|
1.0
|
|
CHC
|
L:BCL308
|
3.4
|
25.4
|
1.0
|
|
CHD
|
L:BCL308
|
3.5
|
12.8
|
1.0
|
|
CE1
|
M:HIS182
|
3.6
|
18.1
|
1.0
|
|
C3D
|
L:BCL308
|
4.1
|
25.1
|
1.0
|
|
OBB
|
M:BPH404
|
4.2
|
47.3
|
1.0
|
|
C2A
|
L:BCL308
|
4.3
|
30.6
|
1.0
|
|
C3A
|
L:BCL308
|
4.3
|
30.0
|
1.0
|
|
C3C
|
L:BCL308
|
4.3
|
30.4
|
1.0
|
|
C2C
|
L:BCL308
|
4.4
|
25.1
|
1.0
|
|
C3B
|
L:BCL308
|
4.4
|
27.8
|
1.0
|
|
C2B
|
L:BCL308
|
4.4
|
30.1
|
1.0
|
|
C2D
|
L:BCL308
|
4.4
|
25.4
|
1.0
|
|
CG
|
M:HIS182
|
4.6
|
18.3
|
1.0
|
|
CBA
|
L:BCL308
|
4.6
|
33.0
|
1.0
|
|
CE2
|
L:PHE187
|
4.6
|
27.6
|
1.0
|
|
ND1
|
M:HIS182
|
4.6
|
27.0
|
1.0
|
|
CBD
|
L:BCL308
|
4.8
|
30.5
|
1.0
|
|
CD2
|
L:PHE187
|
5.0
|
25.4
|
1.0
|
|
Magnesium binding site 4 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 4 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg402
b:41.5
occ:1.00
|
MG
|
M:BCL402
|
0.0
|
41.5
|
1.0
|
|
NA
|
M:BCL402
|
2.0
|
57.9
|
1.0
|
|
NC
|
M:BCL402
|
2.0
|
56.8
|
1.0
|
|
ND
|
M:BCL402
|
2.0
|
53.4
|
1.0
|
|
NB
|
M:BCL402
|
2.0
|
53.2
|
1.0
|
|
NE2
|
L:HIS159
|
2.5
|
15.0
|
1.0
|
|
C4D
|
M:BCL402
|
2.9
|
46.8
|
1.0
|
|
C1A
|
M:BCL402
|
3.0
|
52.4
|
1.0
|
|
C4A
|
M:BCL402
|
3.0
|
52.0
|
1.0
|
|
C4C
|
M:BCL402
|
3.0
|
52.8
|
1.0
|
|
C1C
|
M:BCL402
|
3.0
|
52.5
|
1.0
|
|
C1B
|
M:BCL402
|
3.0
|
49.6
|
1.0
|
|
C4B
|
M:BCL402
|
3.1
|
47.7
|
1.0
|
|
C1D
|
M:BCL402
|
3.2
|
51.1
|
1.0
|
|
CHB
|
M:BCL402
|
3.3
|
44.0
|
1.0
|
|
CD2
|
L:HIS159
|
3.4
|
24.4
|
1.0
|
|
CHA
|
M:BCL402
|
3.4
|
48.7
|
1.0
|
|
CHC
|
M:BCL402
|
3.4
|
46.5
|
1.0
|
|
CE1
|
L:HIS159
|
3.5
|
16.6
|
1.0
|
|
CHD
|
M:BCL402
|
3.5
|
48.2
|
1.0
|
|
C3D
|
M:BCL402
|
4.2
|
46.2
|
1.0
|
|
OBB
|
L:BPH302
|
4.3
|
36.5
|
1.0
|
|
C3A
|
M:BCL402
|
4.3
|
53.0
|
1.0
|
|
C2A
|
M:BCL402
|
4.3
|
50.8
|
1.0
|
|
C3C
|
M:BCL402
|
4.3
|
52.4
|
1.0
|
|
C2C
|
M:BCL402
|
4.3
|
53.4
|
1.0
|
|
CE2
|
M:TYR210
|
4.4
|
29.5
|
1.0
|
|
C3B
|
M:BCL402
|
4.4
|
53.3
|
1.0
|
|
C2B
|
M:BCL402
|
4.4
|
56.0
|
1.0
|
|
C2D
|
M:BCL402
|
4.4
|
48.1
|
1.0
|
|
CG
|
L:HIS159
|
4.6
|
24.7
|
1.0
|
|
ND1
|
L:HIS159
|
4.6
|
20.8
|
1.0
|
|
C20
|
L:BPH302
|
4.6
|
38.5
|
1.0
|
|
CBC
|
M:BCL402
|
4.6
|
46.2
|
1.0
|
|
CBA
|
M:BCL402
|
4.7
|
56.2
|
1.0
|
|
CBD
|
M:BCL402
|
4.9
|
47.7
|
1.0
|
|
Magnesium binding site 5 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 5 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg403
b:27.2
occ:1.00
|
MG
|
M:BCL403
|
0.0
|
27.2
|
1.0
|
|
NA
|
M:BCL403
|
2.0
|
30.6
|
1.0
|
|
NC
|
M:BCL403
|
2.0
|
27.0
|
1.0
|
|
ND
|
M:BCL403
|
2.0
|
25.8
|
1.0
|
|
NB
|
M:BCL403
|
2.0
|
16.8
|
1.0
|
|
NE2
|
M:HIS202
|
2.2
|
21.1
|
1.0
|
|
C4D
|
M:BCL403
|
2.9
|
17.4
|
1.0
|
|
C4A
|
M:BCL403
|
3.0
|
19.5
|
1.0
|
|
C1A
|
M:BCL403
|
3.0
|
19.2
|
1.0
|
|
C1C
|
M:BCL403
|
3.0
|
21.6
|
1.0
|
|
C4C
|
M:BCL403
|
3.0
|
18.8
|
1.0
|
|
C1B
|
M:BCL403
|
3.0
|
19.5
|
1.0
|
|
CBB
|
L:BCL301
|
3.1
|
25.9
|
1.0
|
|
C4B
|
M:BCL403
|
3.1
|
10.9
|
1.0
|
|
CE1
|
M:HIS202
|
3.1
|
13.1
|
1.0
|
|
C1D
|
M:BCL403
|
3.2
|
23.0
|
1.0
|
|
CD2
|
M:HIS202
|
3.3
|
17.5
|
1.0
|
|
CHB
|
M:BCL403
|
3.3
|
15.8
|
1.0
|
|
CHA
|
M:BCL403
|
3.4
|
18.9
|
1.0
|
|
CHC
|
M:BCL403
|
3.4
|
10.7
|
1.0
|
|
CAB
|
L:BCL301
|
3.4
|
29.0
|
1.0
|
|
CHD
|
M:BCL403
|
3.5
|
12.7
|
1.0
|
|
OBB
|
L:BCL301
|
3.8
|
33.3
|
1.0
|
|
C3D
|
M:BCL403
|
4.2
|
21.6
|
1.0
|
|
C3B
|
L:BCL301
|
4.2
|
27.1
|
1.0
|
|
C2C
|
M:BCL403
|
4.3
|
26.7
|
1.0
|
|
ND1
|
M:HIS202
|
4.3
|
18.9
|
1.0
|
|
C3A
|
M:BCL403
|
4.3
|
22.9
|
1.0
|
|
C2A
|
M:BCL403
|
4.3
|
23.6
|
1.0
|
|
C3C
|
M:BCL403
|
4.3
|
21.9
|
1.0
|
|
C3B
|
M:BCL403
|
4.4
|
17.7
|
1.0
|
|
C2B
|
M:BCL403
|
4.4
|
27.4
|
1.0
|
|
C2D
|
M:BCL403
|
4.4
|
21.7
|
1.0
|
|
CG
|
M:HIS202
|
4.4
|
14.1
|
1.0
|
|
CD1
|
M:ILE206
|
4.8
|
18.1
|
1.0
|
|
CBD
|
M:BCL403
|
4.8
|
16.5
|
1.0
|
|
CMC
|
M:BCL403
|
4.9
|
17.8
|
1.0
|
|
C2B
|
L:BCL301
|
4.9
|
28.1
|
1.0
|
|
Magnesium binding site 6 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 6 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg502
b:43.3
occ:1.00
|
MG
|
A:BCL502
|
0.0
|
43.3
|
1.0
|
|
NA
|
A:BCL502
|
2.0
|
39.9
|
1.0
|
|
NC
|
A:BCL502
|
2.0
|
36.7
|
1.0
|
|
ND
|
A:BCL502
|
2.0
|
37.9
|
1.0
|
|
NB
|
A:BCL502
|
2.0
|
32.3
|
1.0
|
|
NE2
|
A:HIS33
|
2.7
|
27.3
|
1.0
|
|
C4D
|
A:BCL502
|
2.9
|
34.0
|
1.0
|
|
C4A
|
A:BCL502
|
3.0
|
34.0
|
1.0
|
|
C1A
|
A:BCL502
|
3.0
|
35.1
|
1.0
|
|
C4C
|
A:BCL502
|
3.0
|
34.9
|
1.0
|
|
C1C
|
A:BCL502
|
3.0
|
32.8
|
1.0
|
|
C1B
|
A:BCL502
|
3.0
|
29.9
|
1.0
|
|
C4B
|
A:BCL502
|
3.1
|
32.4
|
1.0
|
|
C1D
|
A:BCL502
|
3.2
|
33.5
|
1.0
|
|
CHB
|
A:BCL502
|
3.4
|
34.7
|
1.0
|
|
CHC
|
A:BCL502
|
3.4
|
33.6
|
1.0
|
|
CHA
|
A:BCL502
|
3.4
|
34.8
|
1.0
|
|
CHD
|
A:BCL502
|
3.5
|
33.7
|
1.0
|
|
CE1
|
A:HIS33
|
3.5
|
25.6
|
1.0
|
|
CD2
|
A:HIS33
|
3.7
|
15.0
|
1.0
|
|
CBB
|
0:BCL101
|
3.8
|
35.6
|
1.0
|
|
CMB
|
0:BCL101
|
4.0
|
36.7
|
1.0
|
|
C3D
|
A:BCL502
|
4.2
|
32.1
|
1.0
|
|
C11
|
B:LMT101
|
4.2
|
45.5
|
1.0
|
|
C8
|
B:LMT101
|
4.3
|
54.2
|
1.0
|
|
C3C
|
A:BCL502
|
4.3
|
40.2
|
1.0
|
|
C3A
|
A:BCL502
|
4.3
|
29.7
|
1.0
|
|
C2A
|
A:BCL502
|
4.3
|
29.9
|
1.0
|
|
C2C
|
A:BCL502
|
4.3
|
31.6
|
1.0
|
|
CMD
|
B:BCL102
|
4.4
|
32.0
|
1.0
|
|
C2B
|
A:BCL502
|
4.4
|
30.7
|
1.0
|
|
C3B
|
A:BCL502
|
4.4
|
34.9
|
1.0
|
|
C2D
|
A:BCL502
|
4.4
|
34.5
|
1.0
|
|
C2B
|
0:BCL101
|
4.6
|
38.6
|
1.0
|
|
CAB
|
0:BCL101
|
4.6
|
37.3
|
1.0
|
|
ND1
|
A:HIS33
|
4.7
|
24.5
|
1.0
|
|
C10
|
B:LMT101
|
4.8
|
48.1
|
1.0
|
|
C3B
|
0:BCL101
|
4.8
|
35.5
|
1.0
|
|
CG
|
A:HIS33
|
4.8
|
28.4
|
1.0
|
|
C12
|
B:LMT101
|
4.8
|
48.3
|
1.0
|
|
CBD
|
A:BCL502
|
4.9
|
32.4
|
1.0
|
|
Magnesium binding site 7 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 7 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg102
b:43.1
occ:1.00
|
MG
|
B:BCL102
|
0.0
|
43.1
|
1.0
|
|
NA
|
B:BCL102
|
2.0
|
35.9
|
1.0
|
|
NC
|
B:BCL102
|
2.0
|
41.6
|
1.0
|
|
ND
|
B:BCL102
|
2.0
|
32.7
|
1.0
|
|
NB
|
B:BCL102
|
2.1
|
36.9
|
1.0
|
|
NE2
|
B:HIS37
|
2.1
|
31.3
|
1.0
|
|
C4D
|
B:BCL102
|
3.0
|
32.0
|
1.0
|
|
C4A
|
B:BCL102
|
3.0
|
36.1
|
1.0
|
|
C1A
|
B:BCL102
|
3.0
|
34.3
|
1.0
|
|
C4C
|
B:BCL102
|
3.0
|
32.1
|
1.0
|
|
C1C
|
B:BCL102
|
3.0
|
34.6
|
1.0
|
|
CE1
|
B:HIS37
|
3.0
|
35.7
|
1.0
|
|
C1B
|
B:BCL102
|
3.1
|
33.8
|
1.0
|
|
C4B
|
B:BCL102
|
3.1
|
33.4
|
1.0
|
|
C1D
|
B:BCL102
|
3.2
|
31.8
|
1.0
|
|
CD2
|
B:HIS37
|
3.2
|
29.0
|
1.0
|
|
CHB
|
B:BCL102
|
3.4
|
35.4
|
1.0
|
|
CHC
|
B:BCL102
|
3.4
|
33.5
|
1.0
|
|
CHA
|
B:BCL102
|
3.4
|
28.9
|
1.0
|
|
CHD
|
B:BCL102
|
3.5
|
31.5
|
1.0
|
|
CBB
|
D:BCL102
|
4.0
|
38.0
|
1.0
|
|
CMB
|
D:BCL102
|
4.1
|
35.0
|
1.0
|
|
ND1
|
B:HIS37
|
4.2
|
34.5
|
1.0
|
|
C3D
|
B:BCL102
|
4.2
|
30.6
|
1.0
|
|
CG
|
B:HIS37
|
4.3
|
30.1
|
1.0
|
|
C3A
|
B:BCL102
|
4.3
|
35.6
|
1.0
|
|
C2A
|
B:BCL102
|
4.3
|
35.8
|
1.0
|
|
C3C
|
B:BCL102
|
4.3
|
27.5
|
1.0
|
|
C2C
|
B:BCL102
|
4.3
|
36.4
|
1.0
|
|
C3B
|
B:BCL102
|
4.4
|
35.8
|
1.0
|
|
C2B
|
B:BCL102
|
4.4
|
36.0
|
1.0
|
|
C2D
|
B:BCL102
|
4.4
|
31.4
|
1.0
|
|
CAB
|
D:BCL102
|
4.7
|
36.5
|
1.0
|
|
C2B
|
D:BCL102
|
4.7
|
36.3
|
1.0
|
|
CD1
|
A:ILE32
|
4.7
|
30.4
|
1.0
|
|
CMD
|
A:BCL502
|
4.7
|
32.5
|
1.0
|
|
CG2
|
A:ILE32
|
4.8
|
26.8
|
1.0
|
|
C3B
|
D:BCL102
|
4.9
|
33.2
|
1.0
|
|
C10
|
B:BCL102
|
4.9
|
38.5
|
1.0
|
|
CBD
|
B:BCL102
|
4.9
|
29.6
|
1.0
|
|
Magnesium binding site 8 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 8 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg102
b:47.7
occ:1.00
|
MG
|
D:BCL102
|
0.0
|
47.7
|
1.0
|
|
NA
|
D:BCL102
|
2.0
|
43.0
|
1.0
|
|
NC
|
D:BCL102
|
2.0
|
42.2
|
1.0
|
|
ND
|
D:BCL102
|
2.0
|
41.8
|
1.0
|
|
NB
|
D:BCL102
|
2.0
|
35.4
|
1.0
|
|
NE2
|
D:HIS33
|
2.6
|
28.0
|
1.0
|
|
C4D
|
D:BCL102
|
2.9
|
37.4
|
1.0
|
|
C4A
|
D:BCL102
|
3.0
|
39.7
|
1.0
|
|
C1A
|
D:BCL102
|
3.0
|
36.9
|
1.0
|
|
C4C
|
D:BCL102
|
3.0
|
38.0
|
1.0
|
|
C1C
|
D:BCL102
|
3.0
|
37.4
|
1.0
|
|
C1B
|
D:BCL102
|
3.0
|
35.9
|
1.0
|
|
C4B
|
D:BCL102
|
3.1
|
35.5
|
1.0
|
|
C1D
|
D:BCL102
|
3.2
|
36.5
|
1.0
|
|
CHB
|
D:BCL102
|
3.3
|
39.5
|
1.0
|
|
CHC
|
D:BCL102
|
3.4
|
35.8
|
1.0
|
|
CE1
|
D:HIS33
|
3.4
|
27.8
|
1.0
|
|
CHA
|
D:BCL102
|
3.4
|
37.8
|
1.0
|
|
CHD
|
D:BCL102
|
3.5
|
36.2
|
1.0
|
|
CD2
|
D:HIS33
|
3.8
|
28.9
|
1.0
|
|
C12
|
E:LMT101
|
3.9
|
47.3
|
1.0
|
|
C10
|
E:LMT101
|
3.9
|
49.6
|
1.0
|
|
CBB
|
B:BCL102
|
4.0
|
34.9
|
1.0
|
|
CMB
|
B:BCL102
|
4.1
|
37.1
|
1.0
|
|
C3D
|
D:BCL102
|
4.2
|
36.1
|
1.0
|
|
C3A
|
D:BCL102
|
4.3
|
36.6
|
1.0
|
|
C2A
|
D:BCL102
|
4.3
|
40.9
|
1.0
|
|
C3C
|
D:BCL102
|
4.3
|
38.8
|
1.0
|
|
C2C
|
D:BCL102
|
4.3
|
36.4
|
1.0
|
|
C2B
|
D:BCL102
|
4.4
|
36.3
|
1.0
|
|
C3B
|
D:BCL102
|
4.4
|
33.2
|
1.0
|
|
C2D
|
D:BCL102
|
4.4
|
37.5
|
1.0
|
|
C11
|
E:LMT101
|
4.4
|
52.0
|
1.0
|
|
CMD
|
E:BCL102
|
4.5
|
36.1
|
1.0
|
|
ND1
|
D:HIS33
|
4.6
|
27.7
|
1.0
|
|
C2B
|
B:BCL102
|
4.7
|
36.0
|
1.0
|
|
CG
|
D:HIS33
|
4.8
|
28.4
|
1.0
|
|
CAB
|
B:BCL102
|
4.9
|
41.0
|
1.0
|
|
CBD
|
D:BCL102
|
4.9
|
40.7
|
1.0
|
|
C3B
|
B:BCL102
|
5.0
|
35.8
|
1.0
|
|
Magnesium binding site 9 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 9 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg102
b:43.4
occ:1.00
|
MG
|
E:BCL102
|
0.0
|
43.4
|
1.0
|
|
NA
|
E:BCL102
|
2.0
|
44.4
|
1.0
|
|
NC
|
E:BCL102
|
2.0
|
42.9
|
1.0
|
|
ND
|
E:BCL102
|
2.0
|
41.7
|
1.0
|
|
NB
|
E:BCL102
|
2.1
|
40.6
|
1.0
|
|
NE2
|
E:HIS37
|
2.1
|
35.5
|
1.0
|
|
C4D
|
E:BCL102
|
2.9
|
35.5
|
1.0
|
|
C4A
|
E:BCL102
|
3.0
|
42.1
|
1.0
|
|
C1A
|
E:BCL102
|
3.0
|
41.6
|
1.0
|
|
C4C
|
E:BCL102
|
3.0
|
39.7
|
1.0
|
|
CE1
|
E:HIS37
|
3.0
|
32.6
|
1.0
|
|
C1C
|
E:BCL102
|
3.0
|
41.2
|
1.0
|
|
C1B
|
E:BCL102
|
3.1
|
37.5
|
1.0
|
|
C4B
|
E:BCL102
|
3.1
|
38.4
|
1.0
|
|
CD2
|
E:HIS37
|
3.1
|
38.5
|
1.0
|
|
C1D
|
E:BCL102
|
3.2
|
40.9
|
1.0
|
|
CHB
|
E:BCL102
|
3.3
|
39.8
|
1.0
|
|
CHC
|
E:BCL102
|
3.4
|
42.7
|
1.0
|
|
CHA
|
E:BCL102
|
3.4
|
36.4
|
1.0
|
|
CHD
|
E:BCL102
|
3.5
|
41.4
|
1.0
|
|
CBB
|
F:BCL502
|
3.8
|
45.9
|
1.0
|
|
ND1
|
E:HIS37
|
4.1
|
35.1
|
1.0
|
|
C3D
|
E:BCL102
|
4.2
|
36.3
|
1.0
|
|
CMB
|
F:BCL502
|
4.2
|
46.0
|
1.0
|
|
CG
|
E:HIS37
|
4.2
|
34.2
|
1.0
|
|
C3A
|
E:BCL102
|
4.3
|
43.0
|
1.0
|
|
C2A
|
E:BCL102
|
4.3
|
44.0
|
1.0
|
|
C3C
|
E:BCL102
|
4.3
|
38.6
|
1.0
|
|
C2C
|
E:BCL102
|
4.3
|
38.2
|
1.0
|
|
C3B
|
E:BCL102
|
4.4
|
42.2
|
1.0
|
|
C2D
|
E:BCL102
|
4.4
|
38.3
|
1.0
|
|
C2B
|
E:BCL102
|
4.4
|
43.3
|
1.0
|
|
C2B
|
F:BCL502
|
4.7
|
46.4
|
1.0
|
|
CAB
|
F:BCL502
|
4.7
|
46.5
|
1.0
|
|
CD1
|
D:ILE32
|
4.8
|
37.9
|
1.0
|
|
CMD
|
D:BCL102
|
4.8
|
36.8
|
1.0
|
|
CBD
|
E:BCL102
|
4.9
|
35.9
|
1.0
|
|
C3B
|
F:BCL502
|
4.9
|
45.7
|
1.0
|
|
Magnesium binding site 10 out
of 37 in 8wdu
Go back to
Magnesium Binding Sites List in 8wdu
Magnesium binding site 10 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By Sucrose Density within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mg502
b:51.9
occ:1.00
|
MG
|
F:BCL502
|
0.0
|
51.9
|
1.0
|
|
NA
|
F:BCL502
|
2.0
|
49.2
|
1.0
|
|
NC
|
F:BCL502
|
2.0
|
49.0
|
1.0
|
|
ND
|
F:BCL502
|
2.0
|
47.1
|
1.0
|
|
NB
|
F:BCL502
|
2.1
|
46.2
|
1.0
|
|
NE2
|
F:HIS33
|
2.6
|
42.4
|
1.0
|
|
C4D
|
F:BCL502
|
2.9
|
42.4
|
1.0
|
|
C4A
|
F:BCL502
|
3.0
|
48.2
|
1.0
|
|
C1A
|
F:BCL502
|
3.0
|
42.7
|
1.0
|
|
C4C
|
F:BCL502
|
3.0
|
44.4
|
1.0
|
|
C1C
|
F:BCL502
|
3.0
|
45.7
|
1.0
|
|
C1B
|
F:BCL502
|
3.0
|
43.6
|
1.0
|
|
C4B
|
F:BCL502
|
3.1
|
41.0
|
1.0
|
|
C1D
|
F:BCL502
|
3.2
|
45.7
|
1.0
|
|
CHB
|
F:BCL502
|
3.4
|
42.4
|
1.0
|
|
CHC
|
F:BCL502
|
3.4
|
43.2
|
1.0
|
|
CE1
|
F:HIS33
|
3.4
|
39.4
|
1.0
|
|
CHA
|
F:BCL502
|
3.4
|
44.0
|
1.0
|
|
CHD
|
F:BCL502
|
3.5
|
43.7
|
1.0
|
|
CD2
|
F:HIS33
|
3.7
|
42.0
|
1.0
|
|
CBB
|
E:BCL102
|
3.8
|
40.4
|
1.0
|
|
C12
|
G:LMT101
|
3.9
|
52.2
|
1.0
|
|
CMB
|
E:BCL102
|
4.1
|
41.1
|
1.0
|
|
C10
|
G:LMT101
|
4.1
|
53.5
|
1.0
|
|
C3D
|
F:BCL502
|
4.2
|
44.0
|
1.0
|
|
C3C
|
F:BCL502
|
4.3
|
50.7
|
1.0
|
|
C3A
|
F:BCL502
|
4.3
|
46.9
|
1.0
|
|
C2A
|
F:BCL502
|
4.3
|
46.4
|
1.0
|
|
C2C
|
F:BCL502
|
4.3
|
41.8
|
1.0
|
|
C11
|
G:LMT101
|
4.4
|
58.1
|
1.0
|
|
C3B
|
F:BCL502
|
4.4
|
45.7
|
1.0
|
|
C2B
|
F:BCL502
|
4.4
|
46.4
|
1.0
|
|
C2D
|
F:BCL502
|
4.4
|
44.2
|
1.0
|
|
CMD
|
G:BCL102
|
4.5
|
47.7
|
1.0
|
|
ND1
|
F:HIS33
|
4.6
|
39.7
|
1.0
|
|
C2B
|
E:BCL102
|
4.6
|
43.3
|
1.0
|
|
CAB
|
E:BCL102
|
4.7
|
41.2
|
1.0
|
|
CG
|
F:HIS33
|
4.8
|
42.4
|
1.0
|
|
CBD
|
F:BCL502
|
4.9
|
42.4
|
1.0
|
|
C3B
|
E:BCL102
|
4.9
|
42.2
|
1.0
|
|
Reference:
K.Tani,
R.Kanno,
A.Harada,
Y.Kobayashi,
A.Minamino,
S.Takenaka,
N.Nakamura,
X.C.Ji,
E.R.Purba,
M.Hall,
L.J.Yu,
M.T.Madigan,
A.Mizoguchi,
K.Iwasaki,
B.M.Humbel,
Y.Kimura,
Z.Y.Wang-Otomo.
High-Resolution Structure and Biochemical Properties of the LH1-Rc Photocomplex From the Model Purple Sulfur Bacterium, Allochromatium Vinosum Commun Biol V. 7 176 2024.
ISSN: ESSN 2399-3642
DOI: 10.1038/S42003-024-05863-W
Page generated: Fri Oct 4 23:13:40 2024
|
