Magnesium in PDB 1dv3: Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Protein crystallography data
The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+, PDB code: 1dv3
was solved by
H.L.Axelrod,
E.C.Abresch,
M.L.Paddock,
M.Y.Okamura,
G.Feher,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
27.80 /
2.50
|
Space group
|
P 43 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
141.250,
141.250,
275.330,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
22.6 /
25.2
|
Other elements in 1dv3:
The structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ also contains other interesting chemical elements:
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
(pdb code 1dv3). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the
Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+, PDB code: 1dv3:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Magnesium binding site 1 out
of 8 in 1dv3
Go back to
Magnesium Binding Sites List in 1dv3
Magnesium binding site 1 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg1001
b:27.8
occ:1.00
|
MG
|
L:BCL1001
|
0.0
|
27.8
|
1.0
|
ND
|
L:BCL1001
|
2.0
|
26.5
|
1.0
|
NB
|
L:BCL1001
|
2.1
|
26.8
|
1.0
|
NC
|
L:BCL1001
|
2.1
|
26.8
|
1.0
|
NA
|
L:BCL1001
|
2.1
|
27.5
|
1.0
|
NE2
|
M:HIS182
|
2.6
|
27.2
|
1.0
|
C4D
|
L:BCL1001
|
3.0
|
27.3
|
1.0
|
C4A
|
L:BCL1001
|
3.0
|
27.9
|
1.0
|
C1C
|
L:BCL1001
|
3.1
|
27.0
|
1.0
|
C1D
|
L:BCL1001
|
3.1
|
26.4
|
1.0
|
C4C
|
L:BCL1001
|
3.1
|
26.4
|
1.0
|
C4B
|
L:BCL1001
|
3.1
|
28.2
|
1.0
|
C1B
|
L:BCL1001
|
3.1
|
26.9
|
1.0
|
C1A
|
L:BCL1001
|
3.1
|
28.1
|
1.0
|
CD2
|
M:HIS182
|
3.4
|
28.3
|
1.0
|
CHC
|
L:BCL1001
|
3.4
|
26.6
|
1.0
|
CHB
|
L:BCL1001
|
3.4
|
26.8
|
1.0
|
CHD
|
L:BCL1001
|
3.4
|
26.8
|
1.0
|
CHA
|
L:BCL1001
|
3.4
|
27.7
|
1.0
|
CE1
|
M:HIS182
|
3.7
|
26.8
|
1.0
|
C2D
|
L:BCL1001
|
4.2
|
26.8
|
1.0
|
C3D
|
L:BCL1001
|
4.3
|
27.3
|
1.0
|
C3B
|
L:BCL1001
|
4.3
|
28.1
|
1.0
|
C2B
|
L:BCL1001
|
4.3
|
27.4
|
1.0
|
C3A
|
L:BCL1001
|
4.4
|
29.2
|
1.0
|
C2C
|
L:BCL1001
|
4.4
|
26.8
|
1.0
|
C3C
|
L:BCL1001
|
4.4
|
26.6
|
1.0
|
C2A
|
L:BCL1001
|
4.5
|
29.4
|
1.0
|
CG
|
M:HIS182
|
4.6
|
28.4
|
1.0
|
CBB
|
M:BPH1005
|
4.6
|
22.7
|
1.0
|
ND1
|
M:HIS182
|
4.8
|
26.8
|
1.0
|
CE2
|
L:PHE181
|
4.8
|
28.1
|
1.0
|
CBD
|
L:BCL1001
|
4.9
|
28.0
|
1.0
|
|
Magnesium binding site 2 out
of 8 in 1dv3
Go back to
Magnesium Binding Sites List in 1dv3
Magnesium binding site 2 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Mg1002
b:31.9
occ:1.00
|
MG
|
L:BCL1002
|
0.0
|
31.9
|
1.0
|
ND
|
L:BCL1002
|
2.1
|
31.5
|
1.0
|
NB
|
L:BCL1002
|
2.1
|
31.5
|
1.0
|
NA
|
L:BCL1002
|
2.1
|
32.9
|
1.0
|
NC
|
L:BCL1002
|
2.1
|
32.6
|
1.0
|
NE2
|
L:HIS173
|
2.3
|
30.1
|
1.0
|
C4A
|
L:BCL1002
|
3.1
|
32.0
|
1.0
|
CE1
|
L:HIS173
|
3.1
|
29.1
|
1.0
|
C1B
|
L:BCL1002
|
3.1
|
31.3
|
1.0
|
C4D
|
L:BCL1002
|
3.1
|
32.3
|
1.0
|
C1D
|
L:BCL1002
|
3.1
|
32.6
|
1.0
|
C4C
|
L:BCL1002
|
3.1
|
32.8
|
1.0
|
C4B
|
L:BCL1002
|
3.1
|
32.3
|
1.0
|
C1C
|
L:BCL1002
|
3.1
|
31.4
|
1.0
|
C1A
|
L:BCL1002
|
3.2
|
31.9
|
1.0
|
CHB
|
L:BCL1002
|
3.3
|
31.3
|
1.0
|
CHD
|
L:BCL1002
|
3.4
|
32.7
|
1.0
|
CHC
|
L:BCL1002
|
3.5
|
31.6
|
1.0
|
CD2
|
L:HIS173
|
3.5
|
28.5
|
1.0
|
CHA
|
L:BCL1002
|
3.5
|
33.0
|
1.0
|
CBB
|
M:BCL1003
|
3.6
|
28.8
|
1.0
|
OBB
|
M:BCL1003
|
3.7
|
35.2
|
1.0
|
CAB
|
M:BCL1003
|
3.7
|
31.7
|
1.0
|
C2D
|
L:BCL1002
|
4.3
|
32.6
|
1.0
|
ND1
|
L:HIS173
|
4.3
|
26.6
|
1.0
|
C2B
|
L:BCL1002
|
4.3
|
30.6
|
1.0
|
C3B
|
L:BCL1002
|
4.3
|
31.1
|
1.0
|
C3D
|
L:BCL1002
|
4.3
|
32.9
|
1.0
|
C3A
|
L:BCL1002
|
4.4
|
32.5
|
1.0
|
C3C
|
L:BCL1002
|
4.4
|
32.1
|
1.0
|
C2C
|
L:BCL1002
|
4.4
|
31.1
|
1.0
|
C3B
|
M:BCL1003
|
4.5
|
30.5
|
1.0
|
CG
|
L:HIS173
|
4.5
|
27.9
|
1.0
|
C2A
|
L:BCL1002
|
4.5
|
30.8
|
1.0
|
CD2
|
L:PHE167
|
4.8
|
35.8
|
1.0
|
CBD
|
L:BCL1002
|
5.0
|
33.2
|
1.0
|
|
Magnesium binding site 3 out
of 8 in 1dv3
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Magnesium Binding Sites List in 1dv3
Magnesium binding site 3 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg1003
b:30.0
occ:1.00
|
MG
|
M:BCL1003
|
0.0
|
30.0
|
1.0
|
ND
|
M:BCL1003
|
2.0
|
29.7
|
1.0
|
NB
|
M:BCL1003
|
2.1
|
30.7
|
1.0
|
NA
|
M:BCL1003
|
2.1
|
29.7
|
1.0
|
NC
|
M:BCL1003
|
2.1
|
30.3
|
1.0
|
NE2
|
M:HIS202
|
2.2
|
29.2
|
1.0
|
C4D
|
M:BCL1003
|
3.0
|
29.1
|
1.0
|
C1B
|
M:BCL1003
|
3.1
|
30.3
|
1.0
|
C4A
|
M:BCL1003
|
3.1
|
29.5
|
1.0
|
C1C
|
M:BCL1003
|
3.1
|
29.8
|
1.0
|
C1D
|
M:BCL1003
|
3.1
|
29.7
|
1.0
|
C4C
|
M:BCL1003
|
3.1
|
30.2
|
1.0
|
C4B
|
M:BCL1003
|
3.1
|
30.7
|
1.0
|
C1A
|
M:BCL1003
|
3.1
|
28.4
|
1.0
|
CE1
|
M:HIS202
|
3.1
|
29.8
|
1.0
|
CD2
|
M:HIS202
|
3.3
|
29.4
|
1.0
|
CBB
|
L:BCL1002
|
3.4
|
30.3
|
1.0
|
CHB
|
M:BCL1003
|
3.4
|
29.2
|
1.0
|
CHC
|
M:BCL1003
|
3.4
|
29.8
|
1.0
|
CHA
|
M:BCL1003
|
3.4
|
28.3
|
1.0
|
CHD
|
M:BCL1003
|
3.4
|
30.3
|
1.0
|
CAB
|
L:BCL1002
|
3.7
|
30.8
|
1.0
|
OBB
|
L:BCL1002
|
4.0
|
29.4
|
1.0
|
C2D
|
M:BCL1003
|
4.3
|
28.8
|
1.0
|
C2B
|
M:BCL1003
|
4.3
|
30.1
|
1.0
|
C3D
|
M:BCL1003
|
4.3
|
28.9
|
1.0
|
C3B
|
M:BCL1003
|
4.3
|
30.5
|
1.0
|
ND1
|
M:HIS202
|
4.3
|
29.7
|
1.0
|
CG
|
M:HIS202
|
4.4
|
30.2
|
1.0
|
C3B
|
L:BCL1002
|
4.4
|
31.1
|
1.0
|
C2C
|
M:BCL1003
|
4.4
|
30.8
|
1.0
|
C3C
|
M:BCL1003
|
4.4
|
30.6
|
1.0
|
C3A
|
M:BCL1003
|
4.5
|
28.3
|
1.0
|
C2A
|
M:BCL1003
|
4.5
|
29.2
|
1.0
|
CBD
|
M:BCL1003
|
4.9
|
27.8
|
1.0
|
|
Magnesium binding site 4 out
of 8 in 1dv3
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Magnesium Binding Sites List in 1dv3
Magnesium binding site 4 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
M:Mg1004
b:25.1
occ:1.00
|
MG
|
M:BCL1004
|
0.0
|
25.1
|
1.0
|
NC
|
M:BCL1004
|
2.0
|
22.6
|
1.0
|
NA
|
M:BCL1004
|
2.0
|
23.7
|
1.0
|
ND
|
M:BCL1004
|
2.0
|
22.6
|
1.0
|
NB
|
M:BCL1004
|
2.1
|
22.1
|
1.0
|
NE2
|
L:HIS153
|
2.6
|
26.6
|
1.0
|
C4A
|
M:BCL1004
|
3.0
|
24.1
|
1.0
|
C4C
|
M:BCL1004
|
3.0
|
22.6
|
1.0
|
C1C
|
M:BCL1004
|
3.0
|
23.0
|
1.0
|
C4D
|
M:BCL1004
|
3.0
|
22.7
|
1.0
|
C1B
|
M:BCL1004
|
3.1
|
22.4
|
1.0
|
C1D
|
M:BCL1004
|
3.1
|
21.4
|
1.0
|
C1A
|
M:BCL1004
|
3.1
|
24.5
|
1.0
|
C4B
|
M:BCL1004
|
3.1
|
22.4
|
1.0
|
CHB
|
M:BCL1004
|
3.4
|
22.3
|
1.0
|
CHD
|
M:BCL1004
|
3.4
|
20.6
|
1.0
|
CD2
|
L:HIS153
|
3.4
|
30.4
|
1.0
|
CHC
|
M:BCL1004
|
3.4
|
23.0
|
1.0
|
CHA
|
M:BCL1004
|
3.4
|
24.9
|
1.0
|
CE1
|
L:HIS153
|
3.7
|
30.1
|
1.0
|
C2D
|
M:BCL1004
|
4.2
|
21.4
|
1.0
|
C2B
|
M:BCL1004
|
4.3
|
23.7
|
1.0
|
CBB
|
L:BPH1006
|
4.3
|
27.0
|
1.0
|
C3D
|
M:BCL1004
|
4.3
|
22.9
|
1.0
|
C3B
|
M:BCL1004
|
4.3
|
22.9
|
1.0
|
C3C
|
M:BCL1004
|
4.3
|
22.7
|
1.0
|
C2C
|
M:BCL1004
|
4.3
|
23.8
|
1.0
|
C3A
|
M:BCL1004
|
4.4
|
25.1
|
1.0
|
C2A
|
M:BCL1004
|
4.4
|
24.8
|
1.0
|
CG
|
L:HIS153
|
4.6
|
33.5
|
1.0
|
CE2
|
M:TYR210
|
4.6
|
29.0
|
1.0
|
ND1
|
L:HIS153
|
4.8
|
33.5
|
1.0
|
CBA
|
M:BCL1004
|
4.8
|
28.5
|
1.0
|
CBC
|
M:BCL1004
|
4.9
|
24.2
|
1.0
|
CBD
|
M:BCL1004
|
4.9
|
27.3
|
1.0
|
|
Magnesium binding site 5 out
of 8 in 1dv3
Go back to
Magnesium Binding Sites List in 1dv3
Magnesium binding site 5 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
R:Mg2002
b:33.5
occ:1.00
|
MG
|
R:BCL2002
|
0.0
|
33.5
|
1.0
|
ND
|
R:BCL2002
|
2.1
|
34.7
|
1.0
|
NB
|
R:BCL2002
|
2.1
|
33.5
|
1.0
|
NC
|
R:BCL2002
|
2.1
|
34.3
|
1.0
|
NA
|
R:BCL2002
|
2.1
|
34.5
|
1.0
|
NE2
|
R:HIS173
|
2.3
|
32.1
|
1.0
|
C4A
|
R:BCL2002
|
3.1
|
35.2
|
1.0
|
CE1
|
R:HIS173
|
3.1
|
30.9
|
1.0
|
C1B
|
R:BCL2002
|
3.1
|
35.0
|
1.0
|
C4D
|
R:BCL2002
|
3.1
|
35.1
|
1.0
|
C1D
|
R:BCL2002
|
3.1
|
35.1
|
1.0
|
C4C
|
R:BCL2002
|
3.1
|
34.5
|
1.0
|
C1C
|
R:BCL2002
|
3.1
|
33.8
|
1.0
|
C4B
|
R:BCL2002
|
3.1
|
33.1
|
1.0
|
C1A
|
R:BCL2002
|
3.2
|
33.9
|
1.0
|
CHB
|
R:BCL2002
|
3.4
|
35.0
|
1.0
|
CHD
|
R:BCL2002
|
3.4
|
35.2
|
1.0
|
CHC
|
R:BCL2002
|
3.5
|
33.2
|
1.0
|
CD2
|
R:HIS173
|
3.5
|
30.8
|
1.0
|
CHA
|
R:BCL2002
|
3.5
|
34.7
|
1.0
|
CBB
|
S:BCL2003
|
3.6
|
31.5
|
1.0
|
CAB
|
S:BCL2003
|
3.7
|
33.3
|
1.0
|
OBB
|
S:BCL2003
|
3.7
|
34.9
|
1.0
|
C2D
|
R:BCL2002
|
4.3
|
35.7
|
1.0
|
ND1
|
R:HIS173
|
4.3
|
29.7
|
1.0
|
C2B
|
R:BCL2002
|
4.3
|
34.5
|
1.0
|
C3D
|
R:BCL2002
|
4.3
|
36.1
|
1.0
|
C3B
|
R:BCL2002
|
4.4
|
33.5
|
1.0
|
C3A
|
R:BCL2002
|
4.4
|
35.1
|
1.0
|
C2C
|
R:BCL2002
|
4.4
|
33.6
|
1.0
|
C3C
|
R:BCL2002
|
4.4
|
34.5
|
1.0
|
C3B
|
S:BCL2003
|
4.4
|
32.1
|
1.0
|
CG
|
R:HIS173
|
4.5
|
30.1
|
1.0
|
C2A
|
R:BCL2002
|
4.5
|
33.7
|
1.0
|
CD2
|
R:PHE167
|
4.8
|
37.1
|
1.0
|
|
Magnesium binding site 6 out
of 8 in 1dv3
Go back to
Magnesium Binding Sites List in 1dv3
Magnesium binding site 6 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
R:Mg2004
b:27.0
occ:1.00
|
MG
|
R:BCL2004
|
0.0
|
27.0
|
1.0
|
ND
|
R:BCL2004
|
2.0
|
27.7
|
1.0
|
NC
|
R:BCL2004
|
2.0
|
26.8
|
1.0
|
NA
|
R:BCL2004
|
2.0
|
27.9
|
1.0
|
NB
|
R:BCL2004
|
2.1
|
25.8
|
1.0
|
NE2
|
R:HIS153
|
2.5
|
29.6
|
1.0
|
C1C
|
R:BCL2004
|
3.0
|
25.9
|
1.0
|
C4D
|
R:BCL2004
|
3.0
|
28.6
|
1.0
|
C4A
|
R:BCL2004
|
3.0
|
28.2
|
1.0
|
C4C
|
R:BCL2004
|
3.1
|
26.1
|
1.0
|
C4B
|
R:BCL2004
|
3.1
|
25.4
|
1.0
|
C1B
|
R:BCL2004
|
3.1
|
25.3
|
1.0
|
C1D
|
R:BCL2004
|
3.1
|
27.8
|
1.0
|
C1A
|
R:BCL2004
|
3.1
|
29.0
|
1.0
|
CHC
|
R:BCL2004
|
3.4
|
25.6
|
1.0
|
CD2
|
R:HIS153
|
3.4
|
32.0
|
1.0
|
CHB
|
R:BCL2004
|
3.4
|
25.7
|
1.0
|
CHA
|
R:BCL2004
|
3.4
|
29.8
|
1.0
|
CHD
|
R:BCL2004
|
3.4
|
25.8
|
1.0
|
CE1
|
R:HIS153
|
3.6
|
30.6
|
1.0
|
C2D
|
R:BCL2004
|
4.3
|
28.2
|
1.0
|
C3B
|
R:BCL2004
|
4.3
|
25.3
|
1.0
|
C2B
|
R:BCL2004
|
4.3
|
24.6
|
1.0
|
C3D
|
R:BCL2004
|
4.3
|
28.9
|
1.0
|
C2C
|
R:BCL2004
|
4.4
|
26.5
|
1.0
|
C3A
|
R:BCL2004
|
4.4
|
30.0
|
1.0
|
C3C
|
R:BCL2004
|
4.4
|
26.2
|
1.0
|
C2A
|
R:BCL2004
|
4.4
|
29.6
|
1.0
|
CG
|
R:HIS153
|
4.6
|
33.5
|
1.0
|
OBB
|
R:BPH2006
|
4.6
|
44.7
|
1.0
|
CE2
|
S:TYR210
|
4.6
|
30.6
|
1.0
|
ND1
|
R:HIS153
|
4.7
|
32.9
|
1.0
|
CBA
|
R:BCL2004
|
4.8
|
35.1
|
1.0
|
CBD
|
R:BCL2004
|
4.9
|
31.3
|
1.0
|
|
Magnesium binding site 7 out
of 8 in 1dv3
Go back to
Magnesium Binding Sites List in 1dv3
Magnesium binding site 7 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
S:Mg2001
b:31.3
occ:1.00
|
MG
|
S:BCL2001
|
0.0
|
31.3
|
1.0
|
ND
|
S:BCL2001
|
2.1
|
31.4
|
1.0
|
NB
|
S:BCL2001
|
2.1
|
31.6
|
1.0
|
NC
|
S:BCL2001
|
2.1
|
32.0
|
1.0
|
NA
|
S:BCL2001
|
2.1
|
31.5
|
1.0
|
NE2
|
S:HIS182
|
2.4
|
30.8
|
1.0
|
C4D
|
S:BCL2001
|
3.1
|
31.3
|
1.0
|
C1C
|
S:BCL2001
|
3.1
|
31.9
|
1.0
|
C1D
|
S:BCL2001
|
3.1
|
31.1
|
1.0
|
C4A
|
S:BCL2001
|
3.1
|
31.7
|
1.0
|
C4B
|
S:BCL2001
|
3.1
|
31.3
|
1.0
|
C1B
|
S:BCL2001
|
3.1
|
32.9
|
1.0
|
C4C
|
S:BCL2001
|
3.1
|
31.6
|
1.0
|
C1A
|
S:BCL2001
|
3.2
|
31.5
|
1.0
|
CD2
|
S:HIS182
|
3.2
|
30.1
|
1.0
|
CHC
|
S:BCL2001
|
3.4
|
31.4
|
1.0
|
CHB
|
S:BCL2001
|
3.4
|
31.4
|
1.0
|
CHD
|
S:BCL2001
|
3.5
|
30.9
|
1.0
|
CE1
|
S:HIS182
|
3.5
|
30.3
|
1.0
|
CHA
|
S:BCL2001
|
3.5
|
31.2
|
1.0
|
C2D
|
S:BCL2001
|
4.2
|
31.6
|
1.0
|
C3D
|
S:BCL2001
|
4.3
|
31.4
|
1.0
|
C3B
|
S:BCL2001
|
4.3
|
32.4
|
1.0
|
C2B
|
S:BCL2001
|
4.3
|
33.0
|
1.0
|
C2C
|
S:BCL2001
|
4.4
|
31.3
|
1.0
|
C3C
|
S:BCL2001
|
4.4
|
30.7
|
1.0
|
CG
|
S:HIS182
|
4.4
|
30.5
|
1.0
|
C3A
|
S:BCL2001
|
4.5
|
31.5
|
1.0
|
C2A
|
S:BCL2001
|
4.5
|
31.8
|
1.0
|
ND1
|
S:HIS182
|
4.6
|
30.3
|
1.0
|
OBB
|
S:BPH2005
|
4.9
|
32.3
|
1.0
|
CBD
|
S:BCL2001
|
5.0
|
30.6
|
1.0
|
|
Magnesium binding site 8 out
of 8 in 1dv3
Go back to
Magnesium Binding Sites List in 1dv3
Magnesium binding site 8 out
of 8 in the Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Photosynthetic Reaction Center From Rhodobacter Sphaeroides in the Charge-Separated D+Qaqb-State with the Proton Transfer Inhibitor CD2+ within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
S:Mg2003
b:31.5
occ:1.00
|
MG
|
S:BCL2003
|
0.0
|
31.5
|
1.0
|
ND
|
S:BCL2003
|
2.0
|
30.8
|
1.0
|
NC
|
S:BCL2003
|
2.1
|
31.1
|
1.0
|
NB
|
S:BCL2003
|
2.1
|
31.2
|
1.0
|
NA
|
S:BCL2003
|
2.1
|
31.2
|
1.0
|
NE2
|
S:HIS202
|
2.3
|
30.1
|
1.0
|
C4D
|
S:BCL2003
|
3.0
|
31.7
|
1.0
|
C1C
|
S:BCL2003
|
3.1
|
31.0
|
1.0
|
C4A
|
S:BCL2003
|
3.1
|
32.0
|
1.0
|
C1D
|
S:BCL2003
|
3.1
|
31.5
|
1.0
|
C1B
|
S:BCL2003
|
3.1
|
32.7
|
1.0
|
C4B
|
S:BCL2003
|
3.1
|
32.0
|
1.0
|
C4C
|
S:BCL2003
|
3.1
|
30.5
|
1.0
|
C1A
|
S:BCL2003
|
3.1
|
31.5
|
1.0
|
CE1
|
S:HIS202
|
3.3
|
30.8
|
1.0
|
CD2
|
S:HIS202
|
3.4
|
31.4
|
1.0
|
CHC
|
S:BCL2003
|
3.4
|
30.9
|
1.0
|
CHB
|
S:BCL2003
|
3.4
|
31.6
|
1.0
|
CHA
|
S:BCL2003
|
3.4
|
31.9
|
1.0
|
CHD
|
S:BCL2003
|
3.5
|
30.9
|
1.0
|
CBB
|
R:BCL2002
|
3.5
|
30.9
|
1.0
|
CAB
|
R:BCL2002
|
3.7
|
32.9
|
1.0
|
OBB
|
R:BCL2002
|
3.8
|
31.6
|
1.0
|
C2D
|
S:BCL2003
|
4.3
|
31.3
|
1.0
|
C3D
|
S:BCL2003
|
4.3
|
31.4
|
1.0
|
C2B
|
S:BCL2003
|
4.3
|
32.3
|
1.0
|
C3B
|
S:BCL2003
|
4.3
|
32.1
|
1.0
|
C2C
|
S:BCL2003
|
4.4
|
30.9
|
1.0
|
C3B
|
R:BCL2002
|
4.4
|
33.5
|
1.0
|
C3C
|
S:BCL2003
|
4.4
|
29.3
|
1.0
|
ND1
|
S:HIS202
|
4.4
|
31.2
|
1.0
|
C3A
|
S:BCL2003
|
4.4
|
32.7
|
1.0
|
C2A
|
S:BCL2003
|
4.5
|
32.1
|
1.0
|
CG
|
S:HIS202
|
4.5
|
32.0
|
1.0
|
CBD
|
S:BCL2003
|
4.9
|
31.2
|
1.0
|
|
Reference:
H.L.Axelrod,
E.C.Abresch,
M.L.Paddock,
M.Y.Okamura,
G.Feher.
Determination of the Binding Sites of the Proton Transfer Inhibitors CD2+ and ZN2+ in Bacterial Reaction Centers. Proc.Natl.Acad.Sci.Usa V. 97 1542 2000.
ISSN: ISSN 0027-8424
PubMed: 10677497
DOI: 10.1073/PNAS.97.4.1542
Page generated: Tue Aug 13 02:45:52 2024
|