Magnesium in PDB 8wdv: Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
Other elements in 8wdv:
The structure of Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae 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 CA2+-Deae
(pdb code 8wdv). 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 CA2+-Deae, PDB code: 8wdv:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 37 in 8wdv
Go back to
Magnesium Binding Sites List in 8wdv
Magnesium binding site 1 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg405
b:37.5
occ:1.00
|
O
|
M:HOH501
|
2.0
|
43.5
|
1.0
|
|
OE1
|
C:GLN183
|
2.1
|
42.6
|
1.0
|
|
O
|
C:HOH507
|
2.1
|
35.9
|
1.0
|
|
OE2
|
M:GLU96
|
2.2
|
55.4
|
1.0
|
|
OE1
|
C:GLU230
|
2.4
|
47.5
|
1.0
|
|
O
|
C:HOH519
|
2.4
|
29.2
|
1.0
|
|
O
|
M:HOH503
|
2.4
|
49.4
|
1.0
|
|
OD1
|
C:ASN184
|
3.2
|
41.2
|
1.0
|
|
CD
|
C:GLN183
|
3.2
|
37.9
|
1.0
|
|
CD
|
C:GLU230
|
3.3
|
47.0
|
1.0
|
|
CD
|
M:GLU96
|
3.3
|
49.0
|
1.0
|
|
OE2
|
C:GLU230
|
3.4
|
45.5
|
1.0
|
|
OE1
|
M:GLU96
|
3.8
|
46.1
|
1.0
|
|
NE2
|
C:GLN183
|
4.0
|
42.5
|
1.0
|
|
O
|
C:HOH606
|
4.2
|
41.7
|
1.0
|
|
CG
|
C:GLN183
|
4.2
|
30.6
|
1.0
|
|
CG
|
C:ASN184
|
4.2
|
32.5
|
1.0
|
|
CG
|
M:GLU96
|
4.4
|
42.8
|
1.0
|
|
CG
|
M:PRO176
|
4.5
|
32.1
|
1.0
|
|
O
|
C:HOH543
|
4.5
|
42.5
|
1.0
|
|
O
|
C:ALA194
|
4.6
|
39.9
|
1.0
|
|
ND2
|
C:ASN184
|
4.6
|
41.4
|
1.0
|
|
CB
|
C:GLN183
|
4.6
|
33.6
|
1.0
|
|
CG
|
C:GLU230
|
4.7
|
30.7
|
1.0
|
|
O
|
M:PRO181
|
4.7
|
34.9
|
1.0
|
|
CB
|
M:PRO181
|
4.7
|
18.8
|
1.0
|
|
CA
|
M:PRO181
|
4.9
|
19.3
|
1.0
|
|
CB
|
M:ASP184
|
4.9
|
25.3
|
1.0
|
|
Magnesium binding site 2 out
of 37 in 8wdv
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Magnesium Binding Sites List in 8wdv
Magnesium binding site 2 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg301
b:29.1
occ:1.00
|
MG
|
L:BCL301
|
0.0
|
29.1
|
1.0
|
|
NC
|
L:BCL301
|
2.0
|
18.4
|
1.0
|
|
NA
|
L:BCL301
|
2.0
|
28.8
|
1.0
|
|
ND
|
L:BCL301
|
2.0
|
19.5
|
1.0
|
|
NB
|
L:BCL301
|
2.1
|
16.5
|
1.0
|
|
NE2
|
L:HIS179
|
2.1
|
23.9
|
1.0
|
|
CE1
|
L:HIS179
|
2.9
|
15.6
|
1.0
|
|
C4D
|
L:BCL301
|
3.0
|
19.7
|
1.0
|
|
C4C
|
L:BCL301
|
3.0
|
18.2
|
1.0
|
|
C4A
|
L:BCL301
|
3.0
|
20.1
|
1.0
|
|
C1A
|
L:BCL301
|
3.0
|
22.4
|
1.0
|
|
C1C
|
L:BCL301
|
3.0
|
18.5
|
1.0
|
|
C1B
|
L:BCL301
|
3.1
|
13.1
|
1.0
|
|
C4B
|
L:BCL301
|
3.1
|
17.7
|
1.0
|
|
C1D
|
L:BCL301
|
3.2
|
18.8
|
1.0
|
|
CD2
|
L:HIS179
|
3.2
|
19.8
|
1.0
|
|
CHB
|
L:BCL301
|
3.4
|
14.1
|
1.0
|
|
CHC
|
L:BCL301
|
3.4
|
13.9
|
1.0
|
|
CHA
|
L:BCL301
|
3.4
|
21.7
|
1.0
|
|
CHD
|
L:BCL301
|
3.5
|
15.7
|
1.0
|
|
CAB
|
M:BCL404
|
3.6
|
14.6
|
1.0
|
|
OBB
|
M:BCL404
|
3.6
|
27.6
|
1.0
|
|
CBB
|
M:BCL404
|
3.7
|
15.7
|
1.0
|
|
ND1
|
L:HIS179
|
4.0
|
18.6
|
1.0
|
|
C3D
|
L:BCL301
|
4.2
|
23.2
|
1.0
|
|
CG
|
L:HIS179
|
4.2
|
18.0
|
1.0
|
|
C3A
|
L:BCL301
|
4.3
|
22.3
|
1.0
|
|
C3C
|
L:BCL301
|
4.3
|
25.5
|
1.0
|
|
C2A
|
L:BCL301
|
4.3
|
23.2
|
1.0
|
|
C2C
|
L:BCL301
|
4.3
|
18.6
|
1.0
|
|
C3B
|
M:BCL404
|
4.4
|
14.0
|
1.0
|
|
C3B
|
L:BCL301
|
4.4
|
11.0
|
1.0
|
|
C2B
|
L:BCL301
|
4.4
|
17.4
|
1.0
|
|
C2D
|
L:BCL301
|
4.4
|
25.5
|
1.0
|
|
CD2
|
L:PHE173
|
4.6
|
13.8
|
1.0
|
|
CE2
|
L:PHE173
|
4.8
|
14.2
|
1.0
|
|
CBD
|
L:BCL301
|
4.9
|
24.1
|
1.0
|
|
CMA
|
L:BCL301
|
4.9
|
25.3
|
1.0
|
|
Magnesium binding site 3 out
of 37 in 8wdv
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Magnesium Binding Sites List in 8wdv
Magnesium binding site 3 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg307
b:35.9
occ:1.00
|
MG
|
L:BCL307
|
0.0
|
35.9
|
1.0
|
|
NA
|
L:BCL307
|
2.0
|
35.5
|
1.0
|
|
NC
|
L:BCL307
|
2.0
|
29.8
|
1.0
|
|
ND
|
L:BCL307
|
2.0
|
28.7
|
1.0
|
|
NB
|
L:BCL307
|
2.0
|
25.8
|
1.0
|
|
NE2
|
M:HIS182
|
2.7
|
21.2
|
1.0
|
|
C4D
|
L:BCL307
|
2.9
|
21.0
|
1.0
|
|
C1A
|
L:BCL307
|
3.0
|
31.2
|
1.0
|
|
C4A
|
L:BCL307
|
3.0
|
29.4
|
1.0
|
|
C4C
|
L:BCL307
|
3.0
|
23.6
|
1.0
|
|
C1C
|
L:BCL307
|
3.0
|
26.8
|
1.0
|
|
C1B
|
L:BCL307
|
3.0
|
24.9
|
1.0
|
|
C4B
|
L:BCL307
|
3.1
|
21.2
|
1.0
|
|
C1D
|
L:BCL307
|
3.2
|
23.5
|
1.0
|
|
CHB
|
L:BCL307
|
3.3
|
19.7
|
1.0
|
|
CHC
|
L:BCL307
|
3.4
|
22.9
|
1.0
|
|
CHA
|
L:BCL307
|
3.4
|
20.5
|
1.0
|
|
CHD
|
L:BCL307
|
3.5
|
20.4
|
1.0
|
|
CD2
|
M:HIS182
|
3.5
|
19.6
|
1.0
|
|
CE1
|
M:HIS182
|
3.8
|
20.8
|
1.0
|
|
OBB
|
M:BPH405
|
4.0
|
44.5
|
1.0
|
|
C3D
|
L:BCL307
|
4.2
|
21.9
|
1.0
|
|
C2A
|
L:BCL307
|
4.3
|
29.5
|
1.0
|
|
C3A
|
L:BCL307
|
4.3
|
31.3
|
1.0
|
|
C3C
|
L:BCL307
|
4.3
|
28.2
|
1.0
|
|
C2C
|
L:BCL307
|
4.3
|
26.1
|
1.0
|
|
C3B
|
L:BCL307
|
4.4
|
25.1
|
1.0
|
|
C2B
|
L:BCL307
|
4.4
|
29.4
|
1.0
|
|
C2D
|
L:BCL307
|
4.4
|
22.6
|
1.0
|
|
CE2
|
L:PHE187
|
4.5
|
21.1
|
1.0
|
|
CBA
|
L:BCL307
|
4.6
|
27.9
|
1.0
|
|
CG
|
M:HIS182
|
4.8
|
18.6
|
1.0
|
|
CD2
|
L:PHE187
|
4.8
|
24.0
|
1.0
|
|
ND1
|
M:HIS182
|
4.9
|
25.3
|
1.0
|
|
CBD
|
L:BCL307
|
4.9
|
23.7
|
1.0
|
|
CAB
|
M:BPH405
|
4.9
|
39.6
|
1.0
|
|
Magnesium binding site 4 out
of 37 in 8wdv
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Magnesium Binding Sites List in 8wdv
Magnesium binding site 4 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg403
b:32.6
occ:1.00
|
MG
|
M:BCL403
|
0.0
|
32.6
|
1.0
|
|
NA
|
M:BCL403
|
2.0
|
33.6
|
1.0
|
|
NC
|
M:BCL403
|
2.0
|
29.5
|
1.0
|
|
ND
|
M:BCL403
|
2.0
|
28.3
|
1.0
|
|
NB
|
M:BCL403
|
2.0
|
33.0
|
1.0
|
|
NE2
|
L:HIS159
|
2.5
|
18.2
|
1.0
|
|
C4D
|
M:BCL403
|
2.9
|
20.7
|
1.0
|
|
C1A
|
M:BCL403
|
3.0
|
28.9
|
1.0
|
|
C4A
|
M:BCL403
|
3.0
|
26.9
|
1.0
|
|
C4C
|
M:BCL403
|
3.0
|
23.2
|
1.0
|
|
C1C
|
M:BCL403
|
3.0
|
31.2
|
1.0
|
|
C1B
|
M:BCL403
|
3.0
|
26.5
|
1.0
|
|
C4B
|
M:BCL403
|
3.1
|
23.4
|
1.0
|
|
C1D
|
M:BCL403
|
3.2
|
26.2
|
1.0
|
|
CD2
|
L:HIS159
|
3.3
|
22.5
|
1.0
|
|
CHB
|
M:BCL403
|
3.4
|
21.8
|
1.0
|
|
CHA
|
M:BCL403
|
3.4
|
23.7
|
1.0
|
|
CHC
|
M:BCL403
|
3.4
|
22.2
|
1.0
|
|
CE1
|
L:HIS159
|
3.5
|
23.8
|
1.0
|
|
CHD
|
M:BCL403
|
3.5
|
22.0
|
1.0
|
|
C3D
|
M:BCL403
|
4.2
|
23.8
|
1.0
|
|
OBB
|
L:BPH302
|
4.2
|
33.7
|
1.0
|
|
C2A
|
M:BCL403
|
4.3
|
27.6
|
1.0
|
|
C3A
|
M:BCL403
|
4.3
|
28.1
|
1.0
|
|
C2C
|
M:BCL403
|
4.3
|
28.6
|
1.0
|
|
C3C
|
M:BCL403
|
4.3
|
27.3
|
1.0
|
|
C3B
|
M:BCL403
|
4.4
|
29.2
|
1.0
|
|
C2B
|
M:BCL403
|
4.4
|
26.9
|
1.0
|
|
C2D
|
M:BCL403
|
4.4
|
22.8
|
1.0
|
|
CE2
|
M:TYR210
|
4.4
|
15.8
|
1.0
|
|
CG
|
L:HIS159
|
4.5
|
24.7
|
1.0
|
|
C20
|
L:BPH302
|
4.5
|
31.1
|
1.0
|
|
ND1
|
L:HIS159
|
4.5
|
28.6
|
1.0
|
|
CBA
|
M:BCL403
|
4.7
|
32.5
|
1.0
|
|
CBC
|
M:BCL403
|
4.7
|
23.8
|
1.0
|
|
CBD
|
M:BCL403
|
4.9
|
20.3
|
1.0
|
|
CD2
|
L:LEU160
|
5.0
|
22.9
|
1.0
|
|
Magnesium binding site 5 out
of 37 in 8wdv
Go back to
Magnesium Binding Sites List in 8wdv
Magnesium binding site 5 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg404
b:27.5
occ:1.00
|
MG
|
M:BCL404
|
0.0
|
27.5
|
1.0
|
|
NA
|
M:BCL404
|
2.0
|
26.5
|
1.0
|
|
NC
|
M:BCL404
|
2.0
|
21.1
|
1.0
|
|
ND
|
M:BCL404
|
2.0
|
20.0
|
1.0
|
|
NB
|
M:BCL404
|
2.0
|
21.8
|
1.0
|
|
NE2
|
M:HIS202
|
2.3
|
20.9
|
1.0
|
|
C4D
|
M:BCL404
|
2.9
|
19.8
|
1.0
|
|
C1A
|
M:BCL404
|
3.0
|
20.7
|
1.0
|
|
C4A
|
M:BCL404
|
3.0
|
23.7
|
1.0
|
|
C1C
|
M:BCL404
|
3.0
|
16.0
|
1.0
|
|
C4C
|
M:BCL404
|
3.0
|
18.7
|
1.0
|
|
C1B
|
M:BCL404
|
3.0
|
14.9
|
1.0
|
|
C4B
|
M:BCL404
|
3.1
|
16.1
|
1.0
|
|
CBB
|
L:BCL301
|
3.1
|
10.9
|
1.0
|
|
CE1
|
M:HIS202
|
3.1
|
18.6
|
1.0
|
|
C1D
|
M:BCL404
|
3.2
|
18.2
|
1.0
|
|
CHB
|
M:BCL404
|
3.3
|
17.1
|
1.0
|
|
CD2
|
M:HIS202
|
3.3
|
17.7
|
1.0
|
|
CHA
|
M:BCL404
|
3.4
|
18.1
|
1.0
|
|
CHC
|
M:BCL404
|
3.4
|
12.3
|
1.0
|
|
CAB
|
L:BCL301
|
3.5
|
15.7
|
1.0
|
|
CHD
|
M:BCL404
|
3.5
|
16.8
|
1.0
|
|
OBB
|
L:BCL301
|
3.9
|
27.0
|
1.0
|
|
C3D
|
M:BCL404
|
4.1
|
20.6
|
1.0
|
|
C3B
|
L:BCL301
|
4.2
|
11.0
|
1.0
|
|
C2C
|
M:BCL404
|
4.3
|
13.9
|
1.0
|
|
C3A
|
M:BCL404
|
4.3
|
23.0
|
1.0
|
|
C2A
|
M:BCL404
|
4.3
|
20.8
|
1.0
|
|
ND1
|
M:HIS202
|
4.3
|
21.8
|
1.0
|
|
C3C
|
M:BCL404
|
4.3
|
22.2
|
1.0
|
|
C3B
|
M:BCL404
|
4.4
|
14.0
|
1.0
|
|
C2B
|
M:BCL404
|
4.4
|
19.4
|
1.0
|
|
C2D
|
M:BCL404
|
4.4
|
15.1
|
1.0
|
|
CG
|
M:HIS202
|
4.4
|
20.7
|
1.0
|
|
CBD
|
M:BCL404
|
4.8
|
17.1
|
1.0
|
|
CD1
|
M:ILE206
|
4.9
|
18.7
|
1.0
|
|
CMC
|
M:BCL404
|
4.9
|
15.0
|
1.0
|
|
C2B
|
L:BCL301
|
4.9
|
17.4
|
1.0
|
|
Magnesium binding site 6 out
of 37 in 8wdv
Go back to
Magnesium Binding Sites List in 8wdv
Magnesium binding site 6 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg101
b:40.3
occ:1.00
|
MG
|
A:BCL101
|
0.0
|
40.3
|
1.0
|
|
NA
|
A:BCL101
|
2.0
|
36.2
|
1.0
|
|
NC
|
A:BCL101
|
2.0
|
33.6
|
1.0
|
|
ND
|
A:BCL101
|
2.0
|
34.3
|
1.0
|
|
NB
|
A:BCL101
|
2.0
|
26.3
|
1.0
|
|
NE2
|
A:HIS33
|
2.7
|
15.8
|
1.0
|
|
C4D
|
A:BCL101
|
2.9
|
23.0
|
1.0
|
|
C4A
|
A:BCL101
|
3.0
|
27.8
|
1.0
|
|
C1A
|
A:BCL101
|
3.0
|
29.8
|
1.0
|
|
C4C
|
A:BCL101
|
3.0
|
28.0
|
1.0
|
|
C1C
|
A:BCL101
|
3.0
|
29.3
|
1.0
|
|
C1B
|
A:BCL101
|
3.0
|
26.5
|
1.0
|
|
C4B
|
A:BCL101
|
3.1
|
16.4
|
1.0
|
|
C1D
|
A:BCL101
|
3.2
|
27.4
|
1.0
|
|
CHB
|
A:BCL101
|
3.4
|
25.4
|
1.0
|
|
CHC
|
A:BCL101
|
3.4
|
21.2
|
1.0
|
|
CHA
|
A:BCL101
|
3.4
|
25.1
|
1.0
|
|
CHD
|
A:BCL101
|
3.5
|
26.0
|
1.0
|
|
CE1
|
A:HIS33
|
3.5
|
14.8
|
1.0
|
|
CBB
|
0:BCL102
|
3.7
|
37.6
|
1.0
|
|
CD2
|
A:HIS33
|
3.7
|
16.1
|
1.0
|
|
C11
|
B:LMT101
|
3.9
|
69.3
|
1.0
|
|
C12
|
B:LMT101
|
4.1
|
67.2
|
1.0
|
|
CMB
|
0:BCL102
|
4.1
|
31.3
|
1.0
|
|
C3D
|
A:BCL101
|
4.2
|
27.0
|
1.0
|
|
C3A
|
A:BCL101
|
4.3
|
26.8
|
1.0
|
|
C2A
|
A:BCL101
|
4.3
|
29.7
|
1.0
|
|
C3C
|
A:BCL101
|
4.3
|
26.3
|
1.0
|
|
C2C
|
A:BCL101
|
4.3
|
25.3
|
1.0
|
|
C3B
|
A:BCL101
|
4.4
|
21.1
|
1.0
|
|
C2B
|
A:BCL101
|
4.4
|
23.4
|
1.0
|
|
C2D
|
A:BCL101
|
4.4
|
27.7
|
1.0
|
|
CMD
|
B:BCL102
|
4.5
|
35.2
|
1.0
|
|
C2B
|
0:BCL102
|
4.6
|
26.9
|
1.0
|
|
CAB
|
0:BCL102
|
4.6
|
28.5
|
1.0
|
|
ND1
|
A:HIS33
|
4.7
|
22.4
|
1.0
|
|
C3B
|
0:BCL102
|
4.8
|
27.8
|
1.0
|
|
CG
|
A:HIS33
|
4.9
|
20.1
|
1.0
|
|
CBD
|
A:BCL101
|
4.9
|
29.3
|
1.0
|
|
C10
|
B:LMT101
|
5.0
|
70.7
|
1.0
|
|
Magnesium binding site 7 out
of 37 in 8wdv
Go back to
Magnesium Binding Sites List in 8wdv
Magnesium binding site 7 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg102
b:34.1
occ:1.00
|
MG
|
B:BCL102
|
0.0
|
34.1
|
1.0
|
|
NA
|
B:BCL102
|
2.0
|
36.8
|
1.0
|
|
NC
|
B:BCL102
|
2.0
|
39.8
|
1.0
|
|
ND
|
B:BCL102
|
2.0
|
29.2
|
1.0
|
|
NB
|
B:BCL102
|
2.0
|
33.4
|
1.0
|
|
NE2
|
B:HIS37
|
2.1
|
21.8
|
1.0
|
|
C4D
|
B:BCL102
|
3.0
|
29.0
|
1.0
|
|
C4A
|
B:BCL102
|
3.0
|
38.9
|
1.0
|
|
C4C
|
B:BCL102
|
3.0
|
33.7
|
1.0
|
|
C1A
|
B:BCL102
|
3.0
|
34.9
|
1.0
|
|
C1C
|
B:BCL102
|
3.0
|
34.7
|
1.0
|
|
C1B
|
B:BCL102
|
3.1
|
30.9
|
1.0
|
|
CE1
|
B:HIS37
|
3.1
|
23.9
|
1.0
|
|
C4B
|
B:BCL102
|
3.1
|
35.2
|
1.0
|
|
CD2
|
B:HIS37
|
3.1
|
16.6
|
1.0
|
|
C1D
|
B:BCL102
|
3.1
|
30.1
|
1.0
|
|
CHB
|
B:BCL102
|
3.4
|
35.5
|
1.0
|
|
CHC
|
B:BCL102
|
3.4
|
33.5
|
1.0
|
|
CHA
|
B:BCL102
|
3.4
|
28.8
|
1.0
|
|
CHD
|
B:BCL102
|
3.5
|
30.5
|
1.0
|
|
CBB
|
D:BCL503
|
4.0
|
36.3
|
1.0
|
|
C3D
|
B:BCL102
|
4.2
|
31.6
|
1.0
|
|
ND1
|
B:HIS37
|
4.2
|
24.4
|
1.0
|
|
CG
|
B:HIS37
|
4.2
|
16.6
|
1.0
|
|
CMB
|
D:BCL503
|
4.3
|
37.0
|
1.0
|
|
C3A
|
B:BCL102
|
4.3
|
38.8
|
1.0
|
|
C2A
|
B:BCL102
|
4.3
|
35.8
|
1.0
|
|
C3C
|
B:BCL102
|
4.3
|
26.9
|
1.0
|
|
C2C
|
B:BCL102
|
4.3
|
30.2
|
1.0
|
|
C3B
|
B:BCL102
|
4.4
|
37.2
|
1.0
|
|
C2D
|
B:BCL102
|
4.4
|
31.6
|
1.0
|
|
C2B
|
B:BCL102
|
4.4
|
35.2
|
1.0
|
|
CD1
|
A:ILE32
|
4.7
|
14.8
|
1.0
|
|
CAB
|
D:BCL503
|
4.7
|
35.4
|
1.0
|
|
C2B
|
D:BCL503
|
4.8
|
37.1
|
1.0
|
|
CMD
|
A:BCL101
|
4.8
|
30.8
|
1.0
|
|
CG2
|
A:ILE32
|
4.9
|
16.8
|
1.0
|
|
CBD
|
B:BCL102
|
4.9
|
28.1
|
1.0
|
|
C3B
|
D:BCL503
|
4.9
|
36.2
|
1.0
|
|
Magnesium binding site 8 out
of 37 in 8wdv
Go back to
Magnesium Binding Sites List in 8wdv
Magnesium binding site 8 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg503
b:44.6
occ:1.00
|
MG
|
D:BCL503
|
0.0
|
44.6
|
1.0
|
|
NC
|
D:BCL503
|
2.0
|
46.7
|
1.0
|
|
NA
|
D:BCL503
|
2.0
|
43.1
|
1.0
|
|
ND
|
D:BCL503
|
2.0
|
39.6
|
1.0
|
|
NB
|
D:BCL503
|
2.0
|
34.8
|
1.0
|
|
NE2
|
D:HIS33
|
2.7
|
22.4
|
1.0
|
|
C4D
|
D:BCL503
|
2.9
|
34.3
|
1.0
|
|
C4A
|
D:BCL503
|
3.0
|
39.6
|
1.0
|
|
C1A
|
D:BCL503
|
3.0
|
40.3
|
1.0
|
|
C4C
|
D:BCL503
|
3.0
|
40.6
|
1.0
|
|
C1C
|
D:BCL503
|
3.0
|
35.8
|
1.0
|
|
C1B
|
D:BCL503
|
3.1
|
35.7
|
1.0
|
|
C4B
|
D:BCL503
|
3.1
|
30.8
|
1.0
|
|
C1D
|
D:BCL503
|
3.2
|
37.7
|
1.0
|
|
CHB
|
D:BCL503
|
3.4
|
39.2
|
1.0
|
|
CHC
|
D:BCL503
|
3.4
|
29.8
|
1.0
|
|
CHA
|
D:BCL503
|
3.4
|
39.2
|
1.0
|
|
CHD
|
D:BCL503
|
3.5
|
39.2
|
1.0
|
|
CE1
|
D:HIS33
|
3.5
|
16.5
|
1.0
|
|
CD2
|
D:HIS33
|
3.7
|
17.7
|
1.0
|
|
C12
|
E:LMT101
|
3.8
|
58.4
|
1.0
|
|
C10
|
E:LMT101
|
3.9
|
61.3
|
1.0
|
|
CBB
|
B:BCL102
|
4.0
|
40.8
|
1.0
|
|
CMB
|
B:BCL102
|
4.1
|
41.6
|
1.0
|
|
C3D
|
D:BCL503
|
4.2
|
37.1
|
1.0
|
|
C3A
|
D:BCL503
|
4.3
|
36.5
|
1.0
|
|
C2A
|
D:BCL503
|
4.3
|
41.1
|
1.0
|
|
C3C
|
D:BCL503
|
4.3
|
34.5
|
1.0
|
|
C2C
|
D:BCL503
|
4.3
|
33.3
|
1.0
|
|
C3B
|
D:BCL503
|
4.4
|
36.2
|
1.0
|
|
C2B
|
D:BCL503
|
4.4
|
37.1
|
1.0
|
|
C11
|
E:LMT101
|
4.4
|
60.9
|
1.0
|
|
C2D
|
D:BCL503
|
4.4
|
36.0
|
1.0
|
|
CMD
|
E:BCL102
|
4.5
|
36.4
|
1.0
|
|
C2B
|
B:BCL102
|
4.6
|
35.2
|
1.0
|
|
ND1
|
D:HIS33
|
4.7
|
20.1
|
1.0
|
|
CAB
|
B:BCL102
|
4.8
|
34.1
|
1.0
|
|
CG
|
D:HIS33
|
4.8
|
11.4
|
1.0
|
|
CBD
|
D:BCL503
|
4.9
|
38.4
|
1.0
|
|
C3B
|
B:BCL102
|
4.9
|
37.2
|
1.0
|
|
CMA
|
D:BCL503
|
5.0
|
40.2
|
1.0
|
|
Magnesium binding site 9 out
of 37 in 8wdv
Go back to
Magnesium Binding Sites List in 8wdv
Magnesium binding site 9 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg102
b:35.6
occ:1.00
|
MG
|
E:BCL102
|
0.0
|
35.6
|
1.0
|
|
NA
|
E:BCL102
|
2.0
|
35.5
|
1.0
|
|
NC
|
E:BCL102
|
2.0
|
34.6
|
1.0
|
|
ND
|
E:BCL102
|
2.0
|
33.0
|
1.0
|
|
NB
|
E:BCL102
|
2.0
|
36.5
|
1.0
|
|
NE2
|
E:HIS37
|
2.1
|
18.6
|
1.0
|
|
C4D
|
E:BCL102
|
2.9
|
30.5
|
1.0
|
|
C4A
|
E:BCL102
|
3.0
|
37.8
|
1.0
|
|
C1A
|
E:BCL102
|
3.0
|
36.3
|
1.0
|
|
C4C
|
E:BCL102
|
3.0
|
31.1
|
1.0
|
|
C1C
|
E:BCL102
|
3.0
|
35.2
|
1.0
|
|
C1B
|
E:BCL102
|
3.1
|
34.6
|
1.0
|
|
C4B
|
E:BCL102
|
3.1
|
38.3
|
1.0
|
|
CE1
|
E:HIS37
|
3.1
|
21.2
|
1.0
|
|
CD2
|
E:HIS37
|
3.1
|
12.9
|
1.0
|
|
C1D
|
E:BCL102
|
3.2
|
28.4
|
1.0
|
|
CHB
|
E:BCL102
|
3.4
|
37.1
|
1.0
|
|
CHC
|
E:BCL102
|
3.4
|
38.2
|
1.0
|
|
CHA
|
E:BCL102
|
3.4
|
35.3
|
1.0
|
|
CHD
|
E:BCL102
|
3.5
|
31.1
|
1.0
|
|
CBB
|
F:BCL502
|
3.9
|
28.8
|
1.0
|
|
C3D
|
E:BCL102
|
4.2
|
31.4
|
1.0
|
|
ND1
|
E:HIS37
|
4.2
|
21.2
|
1.0
|
|
CG
|
E:HIS37
|
4.2
|
16.5
|
1.0
|
|
C2A
|
E:BCL102
|
4.3
|
34.9
|
1.0
|
|
C3A
|
E:BCL102
|
4.3
|
37.0
|
1.0
|
|
C3C
|
E:BCL102
|
4.3
|
32.9
|
1.0
|
|
C2C
|
E:BCL102
|
4.3
|
31.8
|
1.0
|
|
CMB
|
F:BCL502
|
4.3
|
24.1
|
1.0
|
|
C3B
|
E:BCL102
|
4.4
|
35.4
|
1.0
|
|
C2B
|
E:BCL102
|
4.4
|
37.7
|
1.0
|
|
C2D
|
E:BCL102
|
4.4
|
31.4
|
1.0
|
|
CMD
|
D:BCL503
|
4.7
|
42.8
|
1.0
|
|
C2B
|
F:BCL502
|
4.8
|
24.2
|
1.0
|
|
CD1
|
D:ILE32
|
4.8
|
16.0
|
1.0
|
|
CAB
|
F:BCL502
|
4.8
|
27.6
|
1.0
|
|
CBD
|
E:BCL102
|
4.9
|
29.3
|
1.0
|
|
CG2
|
D:ILE32
|
5.0
|
17.7
|
1.0
|
|
Magnesium binding site 10 out
of 37 in 8wdv
Go back to
Magnesium Binding Sites List in 8wdv
Magnesium binding site 10 out
of 37 in the Photosynthetic LH1-Rc Complex From the Purple Sulfur Bacterium Allochromatium Vinosum Purified By CA2+-Deae
 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 CA2+-Deae within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mg502
b:31.8
occ:1.00
|
MG
|
F:BCL502
|
0.0
|
31.8
|
1.0
|
|
NC
|
F:BCL502
|
2.0
|
25.7
|
1.0
|
|
NA
|
F:BCL502
|
2.0
|
25.5
|
1.0
|
|
ND
|
F:BCL502
|
2.0
|
21.8
|
1.0
|
|
NB
|
F:BCL502
|
2.0
|
25.0
|
1.0
|
|
NE2
|
F:HIS33
|
2.6
|
12.9
|
1.0
|
|
C4D
|
F:BCL502
|
2.9
|
21.4
|
1.0
|
|
C4A
|
F:BCL502
|
3.0
|
25.5
|
1.0
|
|
C4C
|
F:BCL502
|
3.0
|
29.5
|
1.0
|
|
C1A
|
F:BCL502
|
3.0
|
23.7
|
1.0
|
|
C1C
|
F:BCL502
|
3.0
|
19.8
|
1.0
|
|
C1B
|
F:BCL502
|
3.0
|
25.9
|
1.0
|
|
C4B
|
F:BCL502
|
3.1
|
18.1
|
1.0
|
|
C1D
|
F:BCL502
|
3.2
|
22.5
|
1.0
|
|
CHB
|
F:BCL502
|
3.4
|
32.8
|
1.0
|
|
CHC
|
F:BCL502
|
3.4
|
21.1
|
1.0
|
|
CHA
|
F:BCL502
|
3.4
|
27.6
|
1.0
|
|
CE1
|
F:HIS33
|
3.5
|
9.0
|
1.0
|
|
CHD
|
F:BCL502
|
3.5
|
26.7
|
1.0
|
|
CD2
|
F:HIS33
|
3.6
|
6.5
|
1.0
|
|
C12
|
G:LMT101
|
3.8
|
51.3
|
1.0
|
|
CMB
|
E:BCL102
|
4.0
|
39.8
|
1.0
|
|
CBB
|
E:BCL102
|
4.0
|
39.1
|
1.0
|
|
C3D
|
F:BCL502
|
4.2
|
27.9
|
1.0
|
|
C3C
|
F:BCL502
|
4.3
|
33.8
|
1.0
|
|
C3A
|
F:BCL502
|
4.3
|
22.2
|
1.0
|
|
C2A
|
F:BCL502
|
4.3
|
32.0
|
1.0
|
|
C2C
|
F:BCL502
|
4.3
|
24.2
|
1.0
|
|
C3B
|
F:BCL502
|
4.4
|
21.6
|
1.0
|
|
C2B
|
F:BCL502
|
4.4
|
24.2
|
1.0
|
|
C2D
|
F:BCL502
|
4.4
|
25.4
|
1.0
|
|
C10
|
G:LMT101
|
4.4
|
52.2
|
1.0
|
|
CMD
|
G:BCL102
|
4.5
|
29.4
|
1.0
|
|
C2B
|
E:BCL102
|
4.6
|
37.7
|
1.0
|
|
ND1
|
F:HIS33
|
4.6
|
9.0
|
1.0
|
|
CG
|
F:HIS33
|
4.7
|
5.5
|
1.0
|
|
C11
|
G:LMT101
|
4.8
|
50.6
|
1.0
|
|
CAB
|
E:BCL102
|
4.8
|
35.2
|
1.0
|
|
CBD
|
F:BCL502
|
4.9
|
28.6
|
1.0
|
|
C3B
|
E:BCL102
|
4.9
|
35.4
|
1.0
|
|
CMA
|
F:BCL502
|
5.0
|
30.4
|
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 23:13:41 2024
|
