Magnesium in PDB 7vy3: Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
Other elements in 7vy3:
The structure of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U also contains other interesting chemical elements:
Magnesium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Page 3, Binding sites: 21 -
25;
Binding sites:
The binding sites of Magnesium atom in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
(pdb code 7vy3). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 25 binding sites of Magnesium where determined in the
Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U, PDB code: 7vy3:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 1 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg301
b:25.6
occ:1.00
|
MG
|
L:BCL301
|
0.0
|
25.6
|
1.0
|
|
NC
|
L:BCL301
|
2.0
|
25.6
|
1.0
|
|
NA
|
L:BCL301
|
2.0
|
25.6
|
1.0
|
|
ND
|
L:BCL301
|
2.0
|
25.6
|
1.0
|
|
NB
|
L:BCL301
|
2.1
|
25.6
|
1.0
|
|
NE2
|
L:HIS173
|
2.2
|
17.5
|
1.0
|
|
CE1
|
L:HIS173
|
2.9
|
17.5
|
1.0
|
|
C4D
|
L:BCL301
|
3.0
|
25.6
|
1.0
|
|
C4C
|
L:BCL301
|
3.0
|
25.6
|
1.0
|
|
C4A
|
L:BCL301
|
3.0
|
25.6
|
1.0
|
|
C1A
|
L:BCL301
|
3.0
|
25.6
|
1.0
|
|
C1C
|
L:BCL301
|
3.0
|
25.6
|
1.0
|
|
C1B
|
L:BCL301
|
3.1
|
25.6
|
1.0
|
|
C4B
|
L:BCL301
|
3.1
|
25.6
|
1.0
|
|
C1D
|
L:BCL301
|
3.2
|
25.6
|
1.0
|
|
CHB
|
L:BCL301
|
3.4
|
25.6
|
1.0
|
|
CHC
|
L:BCL301
|
3.4
|
25.6
|
1.0
|
|
OBB
|
M:BCL402
|
3.4
|
15.8
|
1.0
|
|
CD2
|
L:HIS173
|
3.4
|
17.5
|
1.0
|
|
CHA
|
L:BCL301
|
3.4
|
25.6
|
1.0
|
|
CHD
|
L:BCL301
|
3.5
|
25.6
|
1.0
|
|
CAB
|
M:BCL402
|
3.5
|
15.8
|
1.0
|
|
CBB
|
M:BCL402
|
3.7
|
15.8
|
1.0
|
|
ND1
|
L:HIS173
|
4.1
|
17.5
|
1.0
|
|
C3D
|
L:BCL301
|
4.2
|
25.6
|
1.0
|
|
C3A
|
L:BCL301
|
4.3
|
25.6
|
1.0
|
|
C3C
|
L:BCL301
|
4.3
|
25.6
|
1.0
|
|
C2A
|
L:BCL301
|
4.3
|
25.6
|
1.0
|
|
C2C
|
L:BCL301
|
4.3
|
25.6
|
1.0
|
|
C3B
|
M:BCL402
|
4.3
|
15.8
|
1.0
|
|
CG
|
L:HIS173
|
4.4
|
17.5
|
1.0
|
|
C3B
|
L:BCL301
|
4.4
|
25.6
|
1.0
|
|
C2B
|
L:BCL301
|
4.4
|
25.6
|
1.0
|
|
C2D
|
L:BCL301
|
4.4
|
25.6
|
1.0
|
|
CD2
|
L:PHE167
|
4.6
|
15.0
|
1.0
|
|
CBD
|
L:BCL301
|
4.9
|
25.6
|
1.0
|
|
CMA
|
L:BCL301
|
4.9
|
25.6
|
1.0
|
|
Magnesium binding site 2 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 2 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg309
b:15.8
occ:1.00
|
MG
|
L:BCL309
|
0.0
|
15.8
|
1.0
|
|
NC
|
L:BCL309
|
2.0
|
15.8
|
1.0
|
|
NA
|
L:BCL309
|
2.0
|
15.8
|
1.0
|
|
ND
|
L:BCL309
|
2.0
|
15.8
|
1.0
|
|
NB
|
L:BCL309
|
2.0
|
15.8
|
1.0
|
|
NE2
|
M:HIS182
|
2.4
|
14.6
|
1.0
|
|
C4D
|
L:BCL309
|
2.9
|
15.8
|
1.0
|
|
C1A
|
L:BCL309
|
3.0
|
15.8
|
1.0
|
|
C4A
|
L:BCL309
|
3.0
|
15.8
|
1.0
|
|
C1C
|
L:BCL309
|
3.0
|
15.8
|
1.0
|
|
C4C
|
L:BCL309
|
3.0
|
15.8
|
1.0
|
|
C1B
|
L:BCL309
|
3.0
|
15.8
|
1.0
|
|
C4B
|
L:BCL309
|
3.1
|
15.8
|
1.0
|
|
CD2
|
M:HIS182
|
3.2
|
14.6
|
1.0
|
|
C1D
|
L:BCL309
|
3.2
|
15.8
|
1.0
|
|
CHB
|
L:BCL309
|
3.3
|
15.8
|
1.0
|
|
CHC
|
L:BCL309
|
3.3
|
15.8
|
1.0
|
|
CHA
|
L:BCL309
|
3.4
|
15.8
|
1.0
|
|
CE1
|
M:HIS182
|
3.5
|
14.6
|
1.0
|
|
CHD
|
L:BCL309
|
3.5
|
15.8
|
1.0
|
|
C3D
|
L:BCL309
|
4.2
|
15.8
|
1.0
|
|
C3C
|
L:BCL309
|
4.3
|
15.8
|
1.0
|
|
C2A
|
L:BCL309
|
4.3
|
15.8
|
1.0
|
|
C2C
|
L:BCL309
|
4.3
|
15.8
|
1.0
|
|
C3A
|
L:BCL309
|
4.3
|
15.8
|
1.0
|
|
C3B
|
L:BCL309
|
4.4
|
15.8
|
1.0
|
|
CG
|
M:HIS182
|
4.4
|
14.6
|
1.0
|
|
C2B
|
L:BCL309
|
4.4
|
15.8
|
1.0
|
|
C2D
|
L:BCL309
|
4.4
|
15.8
|
1.0
|
|
ND1
|
M:HIS182
|
4.5
|
14.6
|
1.0
|
|
CBA
|
L:BCL309
|
4.6
|
15.8
|
1.0
|
|
OBB
|
M:BPH403
|
4.7
|
14.8
|
1.0
|
|
CBD
|
L:BCL309
|
4.9
|
15.8
|
1.0
|
|
C18
|
M:SPO405
|
4.9
|
17.7
|
1.0
|
|
Magnesium binding site 3 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 3 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg401
b:13.6
occ:1.00
|
MG
|
M:BCL401
|
0.0
|
13.6
|
1.0
|
|
NA
|
M:BCL401
|
2.0
|
13.6
|
1.0
|
|
NC
|
M:BCL401
|
2.0
|
13.6
|
1.0
|
|
ND
|
M:BCL401
|
2.0
|
13.6
|
1.0
|
|
NB
|
M:BCL401
|
2.0
|
13.6
|
1.0
|
|
NE2
|
L:HIS153
|
2.5
|
13.4
|
1.0
|
|
C4D
|
M:BCL401
|
2.9
|
13.6
|
1.0
|
|
C1A
|
M:BCL401
|
3.0
|
13.6
|
1.0
|
|
C4A
|
M:BCL401
|
3.0
|
13.6
|
1.0
|
|
C1C
|
M:BCL401
|
3.0
|
13.6
|
1.0
|
|
C4C
|
M:BCL401
|
3.0
|
13.6
|
1.0
|
|
C1B
|
M:BCL401
|
3.1
|
13.6
|
1.0
|
|
C4B
|
M:BCL401
|
3.1
|
13.6
|
1.0
|
|
C1D
|
M:BCL401
|
3.2
|
13.6
|
1.0
|
|
CD2
|
L:HIS153
|
3.4
|
13.4
|
1.0
|
|
CHB
|
M:BCL401
|
3.4
|
13.6
|
1.0
|
|
CHC
|
M:BCL401
|
3.4
|
13.6
|
1.0
|
|
CE1
|
L:HIS153
|
3.4
|
13.4
|
1.0
|
|
CHA
|
M:BCL401
|
3.4
|
13.6
|
1.0
|
|
CHD
|
M:BCL401
|
3.5
|
13.6
|
1.0
|
|
C3D
|
M:BCL401
|
4.2
|
13.6
|
1.0
|
|
C3A
|
M:BCL401
|
4.3
|
13.6
|
1.0
|
|
C2A
|
M:BCL401
|
4.3
|
13.6
|
1.0
|
|
C2C
|
M:BCL401
|
4.3
|
13.6
|
1.0
|
|
C3C
|
M:BCL401
|
4.3
|
13.6
|
1.0
|
|
C3B
|
M:BCL401
|
4.4
|
13.6
|
1.0
|
|
C2B
|
M:BCL401
|
4.4
|
13.6
|
1.0
|
|
C2D
|
M:BCL401
|
4.4
|
13.6
|
1.0
|
|
OBB
|
L:BPH302
|
4.4
|
9.8
|
1.0
|
|
ND1
|
L:HIS153
|
4.5
|
13.4
|
1.0
|
|
CG
|
L:HIS153
|
4.5
|
13.4
|
1.0
|
|
CE2
|
M:TYR210
|
4.6
|
13.3
|
1.0
|
|
CBA
|
M:BCL401
|
4.6
|
13.6
|
1.0
|
|
C20
|
L:BPH302
|
4.6
|
9.8
|
1.0
|
|
CBC
|
M:BCL401
|
4.8
|
13.6
|
1.0
|
|
CBD
|
M:BCL401
|
4.9
|
13.6
|
1.0
|
|
CMC
|
M:BCL401
|
4.9
|
13.6
|
1.0
|
|
CD2
|
L:LEU154
|
5.0
|
11.2
|
1.0
|
|
Magnesium binding site 4 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 4 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg402
b:15.8
occ:1.00
|
MG
|
M:BCL402
|
0.0
|
15.8
|
1.0
|
|
NC
|
M:BCL402
|
2.0
|
15.8
|
1.0
|
|
NA
|
M:BCL402
|
2.0
|
15.8
|
1.0
|
|
ND
|
M:BCL402
|
2.0
|
15.8
|
1.0
|
|
NB
|
M:BCL402
|
2.0
|
15.8
|
1.0
|
|
NE2
|
M:HIS202
|
2.4
|
10.9
|
1.0
|
|
C4D
|
M:BCL402
|
2.9
|
15.8
|
1.0
|
|
C4A
|
M:BCL402
|
3.0
|
15.8
|
1.0
|
|
C1A
|
M:BCL402
|
3.0
|
15.8
|
1.0
|
|
C1C
|
M:BCL402
|
3.0
|
15.8
|
1.0
|
|
C4C
|
M:BCL402
|
3.0
|
15.8
|
1.0
|
|
C1B
|
M:BCL402
|
3.1
|
15.8
|
1.0
|
|
C4B
|
M:BCL402
|
3.1
|
15.8
|
1.0
|
|
C1D
|
M:BCL402
|
3.2
|
15.8
|
1.0
|
|
CE1
|
M:HIS202
|
3.3
|
10.9
|
1.0
|
|
CBB
|
L:BCL301
|
3.3
|
25.6
|
1.0
|
|
CHB
|
M:BCL402
|
3.4
|
15.8
|
1.0
|
|
CHC
|
M:BCL402
|
3.4
|
15.8
|
1.0
|
|
CD2
|
M:HIS202
|
3.4
|
10.9
|
1.0
|
|
CHA
|
M:BCL402
|
3.4
|
15.8
|
1.0
|
|
CHD
|
M:BCL402
|
3.5
|
15.8
|
1.0
|
|
CAB
|
L:BCL301
|
3.6
|
25.6
|
1.0
|
|
OBB
|
L:BCL301
|
3.9
|
25.6
|
1.0
|
|
C3D
|
M:BCL402
|
4.2
|
15.8
|
1.0
|
|
C2C
|
M:BCL402
|
4.3
|
15.8
|
1.0
|
|
C3A
|
M:BCL402
|
4.3
|
15.8
|
1.0
|
|
C2A
|
M:BCL402
|
4.3
|
15.8
|
1.0
|
|
C3C
|
M:BCL402
|
4.3
|
15.8
|
1.0
|
|
C3B
|
M:BCL402
|
4.4
|
15.8
|
1.0
|
|
C3B
|
L:BCL301
|
4.4
|
25.6
|
1.0
|
|
C2B
|
M:BCL402
|
4.4
|
15.8
|
1.0
|
|
C2D
|
M:BCL402
|
4.4
|
15.8
|
1.0
|
|
ND1
|
M:HIS202
|
4.4
|
10.9
|
1.0
|
|
CG
|
M:HIS202
|
4.5
|
10.9
|
1.0
|
|
CD1
|
M:ILE206
|
4.7
|
11.0
|
1.0
|
|
CBD
|
M:BCL402
|
4.9
|
15.8
|
1.0
|
|
CMC
|
M:BCL402
|
5.0
|
15.8
|
1.0
|
|
Magnesium binding site 5 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 5 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg103
b:29.8
occ:1.00
|
MG
|
A:BCL103
|
0.0
|
29.8
|
1.0
|
|
NC
|
A:BCL103
|
2.0
|
29.8
|
1.0
|
|
NA
|
A:BCL103
|
2.0
|
29.8
|
1.0
|
|
ND
|
A:BCL103
|
2.0
|
29.8
|
1.0
|
|
NB
|
A:BCL103
|
2.0
|
29.8
|
1.0
|
|
NE2
|
A:HIS32
|
2.4
|
23.2
|
1.0
|
|
C4D
|
A:BCL103
|
2.9
|
29.8
|
1.0
|
|
C4A
|
A:BCL103
|
3.0
|
29.8
|
1.0
|
|
C1C
|
A:BCL103
|
3.0
|
29.8
|
1.0
|
|
C4C
|
A:BCL103
|
3.0
|
29.8
|
1.0
|
|
C1A
|
A:BCL103
|
3.0
|
29.8
|
1.0
|
|
C1B
|
A:BCL103
|
3.0
|
29.8
|
1.0
|
|
C4B
|
A:BCL103
|
3.1
|
29.8
|
1.0
|
|
C1D
|
A:BCL103
|
3.2
|
29.8
|
1.0
|
|
CE1
|
A:HIS32
|
3.2
|
23.2
|
1.0
|
|
CHB
|
A:BCL103
|
3.3
|
29.8
|
1.0
|
|
CHC
|
A:BCL103
|
3.4
|
29.8
|
1.0
|
|
CHA
|
A:BCL103
|
3.4
|
29.8
|
1.0
|
|
CHD
|
A:BCL103
|
3.5
|
29.8
|
1.0
|
|
CD2
|
A:HIS32
|
3.6
|
23.2
|
1.0
|
|
C3D
|
A:BCL103
|
4.2
|
29.8
|
1.0
|
|
C2C
|
A:BCL103
|
4.3
|
29.8
|
1.0
|
|
C3C
|
A:BCL103
|
4.3
|
29.8
|
1.0
|
|
C3A
|
A:BCL103
|
4.3
|
29.8
|
1.0
|
|
C2A
|
A:BCL103
|
4.3
|
29.8
|
1.0
|
|
CMD
|
B:BCL103
|
4.3
|
22.3
|
1.0
|
|
C3B
|
A:BCL103
|
4.4
|
29.8
|
1.0
|
|
C2B
|
A:BCL103
|
4.4
|
29.8
|
1.0
|
|
C2D
|
A:BCL103
|
4.4
|
29.8
|
1.0
|
|
ND1
|
A:HIS32
|
4.4
|
23.2
|
1.0
|
|
CG
|
A:HIS32
|
4.6
|
23.2
|
1.0
|
|
CBD
|
A:BCL103
|
4.9
|
29.8
|
1.0
|
|
CMA
|
A:BCL103
|
5.0
|
29.8
|
1.0
|
|
Magnesium binding site 6 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 6 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg103
b:22.3
occ:1.00
|
MG
|
B:BCL103
|
0.0
|
22.3
|
1.0
|
|
NC
|
B:BCL103
|
2.0
|
22.3
|
1.0
|
|
NA
|
B:BCL103
|
2.0
|
22.3
|
1.0
|
|
ND
|
B:BCL103
|
2.0
|
22.3
|
1.0
|
|
NB
|
B:BCL103
|
2.0
|
22.3
|
1.0
|
|
NE2
|
B:HIS38
|
2.2
|
24.6
|
1.0
|
|
C4D
|
B:BCL103
|
2.9
|
22.3
|
1.0
|
|
C4A
|
B:BCL103
|
3.0
|
22.3
|
1.0
|
|
C1C
|
B:BCL103
|
3.0
|
22.3
|
1.0
|
|
C1A
|
B:BCL103
|
3.0
|
22.3
|
1.0
|
|
C4C
|
B:BCL103
|
3.0
|
22.3
|
1.0
|
|
C4B
|
B:BCL103
|
3.1
|
22.3
|
1.0
|
|
C1B
|
B:BCL103
|
3.1
|
22.3
|
1.0
|
|
CD2
|
B:HIS38
|
3.1
|
24.6
|
1.0
|
|
C1D
|
B:BCL103
|
3.2
|
22.3
|
1.0
|
|
CE1
|
B:HIS38
|
3.3
|
24.6
|
1.0
|
|
CHC
|
B:BCL103
|
3.3
|
22.3
|
1.0
|
|
CHB
|
B:BCL103
|
3.4
|
22.3
|
1.0
|
|
CHA
|
B:BCL103
|
3.4
|
22.3
|
1.0
|
|
CHD
|
B:BCL103
|
3.5
|
22.3
|
1.0
|
|
CBB
|
D:BCL101
|
3.9
|
20.3
|
1.0
|
|
C3D
|
B:BCL103
|
4.2
|
22.3
|
1.0
|
|
C2A
|
B:BCL103
|
4.3
|
22.3
|
1.0
|
|
C3A
|
B:BCL103
|
4.3
|
22.3
|
1.0
|
|
CMB
|
D:BCL101
|
4.3
|
20.3
|
1.0
|
|
CG
|
B:HIS38
|
4.3
|
24.6
|
1.0
|
|
C3C
|
B:BCL103
|
4.3
|
22.3
|
1.0
|
|
C2C
|
B:BCL103
|
4.3
|
22.3
|
1.0
|
|
ND1
|
B:HIS38
|
4.3
|
24.6
|
1.0
|
|
C3B
|
B:BCL103
|
4.4
|
22.3
|
1.0
|
|
C2D
|
B:BCL103
|
4.4
|
22.3
|
1.0
|
|
C2B
|
B:BCL103
|
4.4
|
22.3
|
1.0
|
|
CAB
|
D:BCL101
|
4.7
|
20.3
|
1.0
|
|
C2B
|
D:BCL101
|
4.7
|
20.3
|
1.0
|
|
CBD
|
B:BCL103
|
4.9
|
22.3
|
1.0
|
|
C3B
|
D:BCL101
|
4.9
|
20.3
|
1.0
|
|
CMD
|
A:BCL103
|
5.0
|
29.8
|
1.0
|
|
Magnesium binding site 7 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 7 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg101
b:20.3
occ:1.00
|
MG
|
D:BCL101
|
0.0
|
20.3
|
1.0
|
|
NA
|
D:BCL101
|
2.0
|
20.3
|
1.0
|
|
NC
|
D:BCL101
|
2.0
|
20.3
|
1.0
|
|
ND
|
D:BCL101
|
2.0
|
20.3
|
1.0
|
|
NB
|
D:BCL101
|
2.0
|
20.3
|
1.0
|
|
NE2
|
D:HIS32
|
2.6
|
15.4
|
1.0
|
|
C4D
|
D:BCL101
|
2.9
|
20.3
|
1.0
|
|
C4A
|
D:BCL101
|
3.0
|
20.3
|
1.0
|
|
C4C
|
D:BCL101
|
3.0
|
20.3
|
1.0
|
|
C1A
|
D:BCL101
|
3.0
|
20.3
|
1.0
|
|
C1C
|
D:BCL101
|
3.0
|
20.3
|
1.0
|
|
C1B
|
D:BCL101
|
3.1
|
20.3
|
1.0
|
|
C4B
|
D:BCL101
|
3.1
|
20.3
|
1.0
|
|
C1D
|
D:BCL101
|
3.2
|
20.3
|
1.0
|
|
CE1
|
D:HIS32
|
3.3
|
15.4
|
1.0
|
|
CHB
|
D:BCL101
|
3.4
|
20.3
|
1.0
|
|
CHC
|
D:BCL101
|
3.4
|
20.3
|
1.0
|
|
CHA
|
D:BCL101
|
3.4
|
20.3
|
1.0
|
|
CHD
|
D:BCL101
|
3.5
|
20.3
|
1.0
|
|
CD2
|
D:HIS32
|
3.7
|
15.4
|
1.0
|
|
CMB
|
B:BCL103
|
3.8
|
22.3
|
1.0
|
|
CBB
|
B:BCL103
|
4.0
|
22.3
|
1.0
|
|
C3D
|
D:BCL101
|
4.2
|
20.3
|
1.0
|
|
C3A
|
D:BCL101
|
4.3
|
20.3
|
1.0
|
|
C18
|
B:SPO104
|
4.3
|
23.2
|
1.0
|
|
C2A
|
D:BCL101
|
4.3
|
20.3
|
1.0
|
|
C3C
|
D:BCL101
|
4.3
|
20.3
|
1.0
|
|
C2C
|
D:BCL101
|
4.3
|
20.3
|
1.0
|
|
C3B
|
D:BCL101
|
4.4
|
20.3
|
1.0
|
|
C2B
|
D:BCL101
|
4.4
|
20.3
|
1.0
|
|
C2D
|
D:BCL101
|
4.4
|
20.3
|
1.0
|
|
C2B
|
B:BCL103
|
4.5
|
22.3
|
1.0
|
|
ND1
|
D:HIS32
|
4.5
|
15.4
|
1.0
|
|
CMD
|
E:BCL101
|
4.7
|
11.5
|
1.0
|
|
CG
|
D:HIS32
|
4.7
|
15.4
|
1.0
|
|
C20
|
B:SPO104
|
4.8
|
23.2
|
1.0
|
|
CBD
|
D:BCL101
|
4.9
|
20.3
|
1.0
|
|
CAB
|
B:BCL103
|
4.9
|
22.3
|
1.0
|
|
C3B
|
B:BCL103
|
5.0
|
22.3
|
1.0
|
|
Magnesium binding site 8 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 8 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg101
b:11.5
occ:1.00
|
MG
|
E:BCL101
|
0.0
|
11.5
|
1.0
|
|
NA
|
E:BCL101
|
2.0
|
11.5
|
1.0
|
|
NC
|
E:BCL101
|
2.0
|
11.5
|
1.0
|
|
ND
|
E:BCL101
|
2.0
|
11.5
|
1.0
|
|
NB
|
E:BCL101
|
2.0
|
11.5
|
1.0
|
|
NE2
|
E:HIS38
|
2.2
|
16.5
|
1.0
|
|
C4D
|
E:BCL101
|
2.9
|
11.5
|
1.0
|
|
C4A
|
E:BCL101
|
3.0
|
11.5
|
1.0
|
|
C1A
|
E:BCL101
|
3.0
|
11.5
|
1.0
|
|
C4C
|
E:BCL101
|
3.0
|
11.5
|
1.0
|
|
C1C
|
E:BCL101
|
3.0
|
11.5
|
1.0
|
|
C1B
|
E:BCL101
|
3.1
|
11.5
|
1.0
|
|
C4B
|
E:BCL101
|
3.1
|
11.5
|
1.0
|
|
C1D
|
E:BCL101
|
3.2
|
11.5
|
1.0
|
|
CD2
|
E:HIS38
|
3.2
|
16.5
|
1.0
|
|
CE1
|
E:HIS38
|
3.3
|
16.5
|
1.0
|
|
CHB
|
E:BCL101
|
3.4
|
11.5
|
1.0
|
|
CHC
|
E:BCL101
|
3.4
|
11.5
|
1.0
|
|
CHA
|
E:BCL101
|
3.4
|
11.5
|
1.0
|
|
CHD
|
E:BCL101
|
3.5
|
11.5
|
1.0
|
|
CBB
|
F:BCL101
|
4.0
|
15.2
|
1.0
|
|
C3D
|
E:BCL101
|
4.2
|
11.5
|
1.0
|
|
CMB
|
F:BCL101
|
4.2
|
15.2
|
1.0
|
|
C2A
|
E:BCL101
|
4.3
|
11.5
|
1.0
|
|
C3A
|
E:BCL101
|
4.3
|
11.5
|
1.0
|
|
C3C
|
E:BCL101
|
4.3
|
11.5
|
1.0
|
|
C2C
|
E:BCL101
|
4.3
|
11.5
|
1.0
|
|
CG
|
E:HIS38
|
4.3
|
16.5
|
1.0
|
|
ND1
|
E:HIS38
|
4.4
|
16.5
|
1.0
|
|
C3B
|
E:BCL101
|
4.4
|
11.5
|
1.0
|
|
C2B
|
E:BCL101
|
4.4
|
11.5
|
1.0
|
|
C2D
|
E:BCL101
|
4.4
|
11.5
|
1.0
|
|
CMD
|
D:BCL101
|
4.6
|
20.3
|
1.0
|
|
CAB
|
F:BCL101
|
4.7
|
15.2
|
1.0
|
|
C2B
|
F:BCL101
|
4.7
|
15.2
|
1.0
|
|
CD1
|
D:ILE31
|
4.8
|
13.7
|
1.0
|
|
C3B
|
F:BCL101
|
4.9
|
15.2
|
1.0
|
|
CBD
|
E:BCL101
|
4.9
|
11.5
|
1.0
|
|
Magnesium binding site 9 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 9 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mg101
b:15.2
occ:1.00
|
MG
|
F:BCL101
|
0.0
|
15.2
|
1.0
|
|
NA
|
F:BCL101
|
2.0
|
15.2
|
1.0
|
|
NC
|
F:BCL101
|
2.0
|
15.2
|
1.0
|
|
ND
|
F:BCL101
|
2.0
|
15.2
|
1.0
|
|
NB
|
F:BCL101
|
2.1
|
15.2
|
1.0
|
|
NE2
|
F:HIS32
|
2.6
|
13.9
|
1.0
|
|
C4D
|
F:BCL101
|
3.0
|
15.2
|
1.0
|
|
C4A
|
F:BCL101
|
3.0
|
15.2
|
1.0
|
|
C4C
|
F:BCL101
|
3.0
|
15.2
|
1.0
|
|
C1A
|
F:BCL101
|
3.0
|
15.2
|
1.0
|
|
C1C
|
F:BCL101
|
3.0
|
15.2
|
1.0
|
|
C1B
|
F:BCL101
|
3.1
|
15.2
|
1.0
|
|
C4B
|
F:BCL101
|
3.1
|
15.2
|
1.0
|
|
C1D
|
F:BCL101
|
3.2
|
15.2
|
1.0
|
|
CHB
|
F:BCL101
|
3.3
|
15.2
|
1.0
|
|
CHC
|
F:BCL101
|
3.4
|
15.2
|
1.0
|
|
CE1
|
F:HIS32
|
3.4
|
13.9
|
1.0
|
|
CHA
|
F:BCL101
|
3.4
|
15.2
|
1.0
|
|
CHD
|
F:BCL101
|
3.5
|
15.2
|
1.0
|
|
CD2
|
F:HIS32
|
3.7
|
13.9
|
1.0
|
|
CBB
|
E:BCL101
|
4.0
|
11.5
|
1.0
|
|
CMB
|
E:BCL101
|
4.0
|
11.5
|
1.0
|
|
C18
|
F:SPO105
|
4.2
|
18.5
|
1.0
|
|
C3D
|
F:BCL101
|
4.2
|
15.2
|
1.0
|
|
C3A
|
F:BCL101
|
4.3
|
15.2
|
1.0
|
|
C2A
|
F:BCL101
|
4.3
|
15.2
|
1.0
|
|
C3C
|
F:BCL101
|
4.3
|
15.2
|
1.0
|
|
C2C
|
F:BCL101
|
4.3
|
15.2
|
1.0
|
|
C3B
|
F:BCL101
|
4.4
|
15.2
|
1.0
|
|
C2B
|
F:BCL101
|
4.4
|
15.2
|
1.0
|
|
C2D
|
F:BCL101
|
4.4
|
15.2
|
1.0
|
|
ND1
|
F:HIS32
|
4.6
|
13.9
|
1.0
|
|
C20
|
F:SPO105
|
4.6
|
18.5
|
1.0
|
|
C2B
|
E:BCL101
|
4.7
|
11.5
|
1.0
|
|
CMD
|
G:BCL101
|
4.8
|
13.5
|
1.0
|
|
CG
|
F:HIS32
|
4.8
|
13.9
|
1.0
|
|
CBD
|
F:BCL101
|
4.9
|
15.2
|
1.0
|
|
CAB
|
E:BCL101
|
5.0
|
11.5
|
1.0
|
|
Magnesium binding site 10 out
of 25 in 7vy3
Go back to
Magnesium Binding Sites List in 7vy3
Magnesium binding site 10 out
of 25 in the Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Structure of Photosynthetic LH1-Rc Super-Complex of Rhodobacter Sphaeroides Lacking Protein-U within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Mg101
b:13.5
occ:1.00
|
MG
|
G:BCL101
|
0.0
|
13.5
|
1.0
|
|
NA
|
G:BCL101
|
2.0
|
13.5
|
1.0
|
|
NC
|
G:BCL101
|
2.0
|
13.5
|
1.0
|
|
ND
|
G:BCL101
|
2.0
|
13.5
|
1.0
|
|
NB
|
G:BCL101
|
2.0
|
13.5
|
1.0
|
|
NE2
|
G:HIS38
|
2.2
|
14.0
|
1.0
|
|
C4D
|
G:BCL101
|
2.9
|
13.5
|
1.0
|
|
C1A
|
G:BCL101
|
3.0
|
13.5
|
1.0
|
|
C4A
|
G:BCL101
|
3.0
|
13.5
|
1.0
|
|
C4C
|
G:BCL101
|
3.0
|
13.5
|
1.0
|
|
C1C
|
G:BCL101
|
3.0
|
13.5
|
1.0
|
|
C1B
|
G:BCL101
|
3.1
|
13.5
|
1.0
|
|
C4B
|
G:BCL101
|
3.1
|
13.5
|
1.0
|
|
CE1
|
G:HIS38
|
3.1
|
14.0
|
1.0
|
|
C1D
|
G:BCL101
|
3.2
|
13.5
|
1.0
|
|
CD2
|
G:HIS38
|
3.3
|
14.0
|
1.0
|
|
CHB
|
G:BCL101
|
3.4
|
13.5
|
1.0
|
|
CHC
|
G:BCL101
|
3.4
|
13.5
|
1.0
|
|
CHA
|
G:BCL101
|
3.4
|
13.5
|
1.0
|
|
CHD
|
G:BCL101
|
3.5
|
13.5
|
1.0
|
|
CBB
|
I:BCL102
|
4.0
|
14.9
|
1.0
|
|
C3D
|
G:BCL101
|
4.2
|
13.5
|
1.0
|
|
CMB
|
I:BCL102
|
4.3
|
14.9
|
1.0
|
|
ND1
|
G:HIS38
|
4.3
|
14.0
|
1.0
|
|
C2A
|
G:BCL101
|
4.3
|
13.5
|
1.0
|
|
C3A
|
G:BCL101
|
4.3
|
13.5
|
1.0
|
|
C3C
|
G:BCL101
|
4.3
|
13.5
|
1.0
|
|
C2C
|
G:BCL101
|
4.3
|
13.5
|
1.0
|
|
C3B
|
G:BCL101
|
4.4
|
13.5
|
1.0
|
|
CG
|
G:HIS38
|
4.4
|
14.0
|
1.0
|
|
C2B
|
G:BCL101
|
4.4
|
13.5
|
1.0
|
|
C2D
|
G:BCL101
|
4.4
|
13.5
|
1.0
|
|
CMD
|
F:BCL101
|
4.6
|
15.2
|
1.0
|
|
C2B
|
I:BCL102
|
4.7
|
14.9
|
1.0
|
|
CAB
|
I:BCL102
|
4.7
|
14.9
|
1.0
|
|
CD1
|
F:ILE31
|
4.9
|
12.1
|
1.0
|
|
CBD
|
G:BCL101
|
4.9
|
13.5
|
1.0
|
|
C3B
|
I:BCL102
|
4.9
|
14.9
|
1.0
|
|
Reference:
K.Tani,
R.Kanno,
R.Kikuchi,
S.Kawamura,
K.V.P.Nagashima,
M.Hall,
A.Takahashi,
L.J.Yu,
Y.Kimura,
M.T.Madigan,
A.Mizoguchi,
B.M.Humbel,
Z.Y.Wang-Otomo.
Asymmetric Structure of the Native Rhodobacter Sphaeroides Dimeric LH1-Rc Complex. Nat Commun V. 13 1904 2022.
ISSN: ESSN 2041-1723
PubMed: 35393413
DOI: 10.1038/S41467-022-29453-8
Page generated: Fri Apr 7 01:11:44 2023
|
