Magnesium in PDB 2bns: Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State
Protein crystallography data
The structure of Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State, PDB code: 2bns
was solved by
G.Katona,
A.Snijder,
P.Gourdon,
U.Andreasson,
O.Hansson,
L.E.Andreasson,
R.Neutze,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
46.13 /
2.50
|
Space group
|
P 42 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
100.099,
100.099,
237.020,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
20.9 /
24.7
|
Other elements in 2bns:
The structure of Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State also contains other interesting chemical elements:
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State
(pdb code 2bns). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the
Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State, PDB code: 2bns:
Jump to Magnesium binding site number:
1;
2;
3;
4;
Magnesium binding site 1 out
of 4 in 2bns
Go back to
Magnesium Binding Sites List in 2bns
Magnesium binding site 1 out
of 4 in the Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1282
b:40.0
occ:1.00
|
MG
|
A:BCL1282
|
0.0
|
40.0
|
1.0
|
NA
|
A:BCL1282
|
1.9
|
43.0
|
1.0
|
NC
|
A:BCL1282
|
2.1
|
44.3
|
1.0
|
NB
|
A:BCL1282
|
2.1
|
43.0
|
1.0
|
ND
|
A:BCL1282
|
2.1
|
43.4
|
1.0
|
NE2
|
A:HIS173
|
2.1
|
28.0
|
1.0
|
CE1
|
A:HIS173
|
2.8
|
25.5
|
1.0
|
C4A
|
A:BCL1282
|
2.9
|
41.9
|
1.0
|
C4D
|
A:BCL1282
|
3.0
|
44.0
|
1.0
|
C1B
|
A:BCL1282
|
3.0
|
42.2
|
1.0
|
C1A
|
A:BCL1282
|
3.1
|
43.0
|
1.0
|
C1C
|
A:BCL1282
|
3.1
|
44.4
|
1.0
|
C4B
|
A:BCL1282
|
3.1
|
43.6
|
1.0
|
C4C
|
A:BCL1282
|
3.2
|
43.3
|
1.0
|
C1D
|
A:BCL1282
|
3.3
|
44.4
|
1.0
|
CBB
|
B:BCL1303
|
3.3
|
44.7
|
1.0
|
CD2
|
A:HIS173
|
3.3
|
25.3
|
1.0
|
CHB
|
A:BCL1282
|
3.3
|
42.6
|
1.0
|
CHA
|
A:BCL1282
|
3.5
|
42.6
|
1.0
|
CHC
|
A:BCL1282
|
3.5
|
43.6
|
1.0
|
CAB
|
B:BCL1303
|
3.5
|
46.8
|
1.0
|
OBB
|
B:BCL1303
|
3.7
|
49.7
|
1.0
|
CHD
|
A:BCL1282
|
3.7
|
44.7
|
1.0
|
ND1
|
A:HIS173
|
4.1
|
22.2
|
1.0
|
C3D
|
A:BCL1282
|
4.2
|
44.7
|
1.0
|
C3A
|
A:BCL1282
|
4.2
|
42.5
|
1.0
|
C2B
|
A:BCL1282
|
4.2
|
42.6
|
1.0
|
C3B
|
A:BCL1282
|
4.3
|
44.4
|
1.0
|
C3B
|
B:BCL1303
|
4.3
|
45.8
|
1.0
|
C2A
|
A:BCL1282
|
4.3
|
41.8
|
1.0
|
CG
|
A:HIS173
|
4.3
|
24.0
|
1.0
|
C2D
|
A:BCL1282
|
4.4
|
44.9
|
1.0
|
C2C
|
A:BCL1282
|
4.4
|
42.8
|
1.0
|
C3C
|
A:BCL1282
|
4.4
|
43.9
|
1.0
|
CD2
|
A:PHE167
|
4.8
|
29.7
|
1.0
|
CBD
|
A:BCL1282
|
4.9
|
42.2
|
1.0
|
CMA
|
A:BCL1282
|
4.9
|
43.1
|
1.0
|
C4B
|
B:BCL1303
|
4.9
|
44.9
|
1.0
|
|
Magnesium binding site 2 out
of 4 in 2bns
Go back to
Magnesium Binding Sites List in 2bns
Magnesium binding site 2 out
of 4 in the Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1283
b:38.2
occ:1.00
|
MG
|
A:BCL1283
|
0.0
|
38.2
|
1.0
|
NC
|
A:BCL1283
|
1.8
|
41.1
|
1.0
|
ND
|
A:BCL1283
|
2.0
|
41.3
|
1.0
|
NA
|
A:BCL1283
|
2.1
|
38.9
|
1.0
|
NB
|
A:BCL1283
|
2.1
|
40.1
|
1.0
|
NE2
|
A:HIS153
|
2.6
|
26.2
|
1.0
|
C1C
|
A:BCL1283
|
2.9
|
40.1
|
1.0
|
C4C
|
A:BCL1283
|
2.9
|
39.5
|
1.0
|
C4D
|
A:BCL1283
|
3.0
|
40.4
|
1.0
|
C4B
|
A:BCL1283
|
3.1
|
40.6
|
1.0
|
C1D
|
A:BCL1283
|
3.1
|
41.5
|
1.0
|
C4A
|
A:BCL1283
|
3.1
|
38.3
|
1.0
|
C1B
|
A:BCL1283
|
3.1
|
40.0
|
1.0
|
C1A
|
A:BCL1283
|
3.2
|
39.9
|
1.0
|
CD2
|
A:HIS153
|
3.4
|
26.6
|
1.0
|
CHC
|
A:BCL1283
|
3.4
|
39.4
|
1.0
|
CHD
|
A:BCL1283
|
3.4
|
41.1
|
1.0
|
CHB
|
A:BCL1283
|
3.5
|
40.0
|
1.0
|
CHA
|
A:BCL1283
|
3.6
|
40.0
|
1.0
|
CE1
|
A:HIS153
|
3.7
|
25.8
|
1.0
|
CBB
|
A:BPH1284
|
4.1
|
38.2
|
1.0
|
C3D
|
A:BCL1283
|
4.2
|
41.0
|
1.0
|
C3C
|
A:BCL1283
|
4.2
|
40.9
|
1.0
|
C2C
|
A:BCL1283
|
4.2
|
41.1
|
1.0
|
C2D
|
A:BCL1283
|
4.2
|
40.1
|
1.0
|
C3B
|
A:BCL1283
|
4.2
|
41.1
|
1.0
|
C2B
|
A:BCL1283
|
4.3
|
40.5
|
1.0
|
C3A
|
A:BCL1283
|
4.4
|
40.5
|
1.0
|
CE2
|
B:TYR210
|
4.4
|
19.9
|
1.0
|
C2A
|
A:BCL1283
|
4.5
|
39.6
|
1.0
|
CG
|
A:HIS153
|
4.6
|
26.4
|
1.0
|
CBC
|
A:BCL1283
|
4.7
|
40.5
|
1.0
|
ND1
|
A:HIS153
|
4.7
|
26.4
|
1.0
|
CBA
|
A:BCL1283
|
4.8
|
39.8
|
1.0
|
C20
|
A:BPH1284
|
4.9
|
43.5
|
1.0
|
CAC
|
A:BCL1283
|
4.9
|
41.0
|
1.0
|
|
Magnesium binding site 3 out
of 4 in 2bns
Go back to
Magnesium Binding Sites List in 2bns
Magnesium binding site 3 out
of 4 in the Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg1302
b:36.8
occ:1.00
|
MG
|
B:BCL1302
|
0.0
|
36.8
|
1.0
|
NC
|
B:BCL1302
|
2.0
|
39.0
|
1.0
|
NB
|
B:BCL1302
|
2.0
|
39.9
|
1.0
|
ND
|
B:BCL1302
|
2.0
|
40.2
|
1.0
|
NA
|
B:BCL1302
|
2.0
|
41.5
|
1.0
|
NE2
|
B:HIS182
|
2.1
|
28.3
|
1.0
|
C4B
|
B:BCL1302
|
2.9
|
40.7
|
1.0
|
C4D
|
B:BCL1302
|
3.0
|
42.4
|
1.0
|
C1C
|
B:BCL1302
|
3.0
|
40.0
|
1.0
|
C1B
|
B:BCL1302
|
3.0
|
39.9
|
1.0
|
CE1
|
B:HIS182
|
3.0
|
26.3
|
1.0
|
C4A
|
B:BCL1302
|
3.1
|
41.6
|
1.0
|
CD2
|
B:HIS182
|
3.1
|
24.0
|
1.0
|
C4C
|
B:BCL1302
|
3.1
|
39.0
|
1.0
|
C1D
|
B:BCL1302
|
3.2
|
40.9
|
1.0
|
C1A
|
B:BCL1302
|
3.2
|
41.6
|
1.0
|
CHC
|
B:BCL1302
|
3.3
|
41.5
|
1.0
|
CHB
|
B:BCL1302
|
3.5
|
40.4
|
1.0
|
CHA
|
B:BCL1302
|
3.6
|
41.9
|
1.0
|
CHD
|
B:BCL1302
|
3.6
|
40.7
|
1.0
|
C3B
|
B:BCL1302
|
4.1
|
41.2
|
1.0
|
C2B
|
B:BCL1302
|
4.2
|
39.6
|
1.0
|
ND1
|
B:HIS182
|
4.2
|
23.3
|
1.0
|
C3D
|
B:BCL1302
|
4.2
|
43.1
|
1.0
|
CG
|
B:HIS182
|
4.3
|
24.2
|
1.0
|
C2D
|
B:BCL1302
|
4.3
|
41.6
|
1.0
|
C2C
|
B:BCL1302
|
4.3
|
39.7
|
1.0
|
C3C
|
B:BCL1302
|
4.4
|
39.8
|
1.0
|
C3A
|
B:BCL1302
|
4.4
|
43.1
|
1.0
|
CBB
|
B:BPH1304
|
4.4
|
44.1
|
1.0
|
C2A
|
B:BCL1302
|
4.4
|
43.8
|
1.0
|
CE2
|
A:PHE181
|
4.9
|
21.8
|
1.0
|
CBA
|
B:BCL1302
|
4.9
|
47.5
|
1.0
|
|
Magnesium binding site 4 out
of 4 in 2bns
Go back to
Magnesium Binding Sites List in 2bns
Magnesium binding site 4 out
of 4 in the Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Lipidic Cubic Phase Grown Reaction Centre From Rhodobacter Sphaeroides, Excited State within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg1303
b:39.8
occ:1.00
|
MG
|
B:BCL1303
|
0.0
|
39.8
|
1.0
|
NC
|
B:BCL1303
|
1.9
|
45.2
|
1.0
|
NA
|
B:BCL1303
|
2.0
|
44.8
|
1.0
|
ND
|
B:BCL1303
|
2.0
|
43.1
|
1.0
|
NE2
|
B:HIS202
|
2.1
|
24.9
|
1.0
|
NB
|
B:BCL1303
|
2.1
|
44.7
|
1.0
|
C1C
|
B:BCL1303
|
2.9
|
44.5
|
1.0
|
CE1
|
B:HIS202
|
3.0
|
22.6
|
1.0
|
C4D
|
B:BCL1303
|
3.0
|
43.1
|
1.0
|
C4C
|
B:BCL1303
|
3.1
|
43.7
|
1.0
|
C4A
|
B:BCL1303
|
3.1
|
44.6
|
1.0
|
C4B
|
B:BCL1303
|
3.1
|
44.9
|
1.0
|
C1B
|
B:BCL1303
|
3.2
|
44.8
|
1.0
|
C1A
|
B:BCL1303
|
3.2
|
43.3
|
1.0
|
C1D
|
B:BCL1303
|
3.2
|
44.5
|
1.0
|
CD2
|
B:HIS202
|
3.2
|
22.2
|
1.0
|
CHC
|
B:BCL1303
|
3.4
|
44.7
|
1.0
|
CHB
|
B:BCL1303
|
3.5
|
45.4
|
1.0
|
CHA
|
B:BCL1303
|
3.5
|
42.9
|
1.0
|
CBB
|
A:BCL1282
|
3.6
|
46.7
|
1.0
|
CHD
|
B:BCL1303
|
3.6
|
44.4
|
1.0
|
CAB
|
A:BCL1282
|
3.8
|
45.2
|
1.0
|
OBB
|
A:BCL1282
|
3.9
|
45.3
|
1.0
|
ND1
|
B:HIS202
|
4.1
|
18.6
|
1.0
|
C2C
|
B:BCL1303
|
4.2
|
45.1
|
1.0
|
C3D
|
B:BCL1303
|
4.2
|
43.4
|
1.0
|
C3C
|
B:BCL1303
|
4.3
|
44.3
|
1.0
|
C3B
|
B:BCL1303
|
4.3
|
45.8
|
1.0
|
CG
|
B:HIS202
|
4.3
|
20.2
|
1.0
|
C2B
|
B:BCL1303
|
4.3
|
44.9
|
1.0
|
C2D
|
B:BCL1303
|
4.3
|
45.2
|
1.0
|
C3A
|
B:BCL1303
|
4.4
|
44.8
|
1.0
|
C2A
|
B:BCL1303
|
4.4
|
43.3
|
1.0
|
C3B
|
A:BCL1282
|
4.5
|
44.4
|
1.0
|
CMC
|
B:BCL1303
|
4.9
|
45.9
|
1.0
|
CBD
|
B:BCL1303
|
5.0
|
43.0
|
1.0
|
|
Reference:
G.Katona,
A.Snijder,
P.Gourdon,
U.Andreasson,
O.Hansson,
L.E.Andreasson,
R.Neutze.
Conformational Regulation of Charge Recombination Reactions in A Photosynthetic Bacterial Reaction Centre Nat.Struct.Mol.Biol. V. 12 630 2005.
ISSN: ISSN 1545-9993
PubMed: 15937492
DOI: 10.1038/NSMB948
Page generated: Tue Aug 13 21:57:31 2024
|