Magnesium in PDB 5oy0: Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Enzymatic activity of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
All present enzymatic activity of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution:
1.97.1.12;
Protein crystallography data
The structure of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution, PDB code: 5oy0
was solved by
N.Nelson,
T.Malavath,
I.Caspy,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
49.48 /
2.50
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
212.170,
137.622,
225.095,
90.00,
116.74,
90.00
|
R / Rfree (%)
|
22.8 /
26.4
|
Other elements in 5oy0:
The structure of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution 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 -
40;
Page 5, Binding sites: 41 -
50;
Page 6, Binding sites: 51 -
60;
Page 7, Binding sites: 61 -
70;
Page 8, Binding sites: 71 -
80;
Page 9, Binding sites: 81 -
90;
Page 10, Binding sites: 91 -
100;
Page 11, Binding sites: 101 -
110;
Page 12, Binding sites: 111 -
120;
Page 13, Binding sites: 121 -
130;
Page 14, Binding sites: 131 -
140;
Page 15, Binding sites: 141 -
150;
Page 16, Binding sites: 151 -
160;
Page 17, Binding sites: 161 -
170;
Page 18, Binding sites: 171 -
180;
Page 19, Binding sites: 181 -
190;
Page 20, Binding sites: 191 -
200;
Page 21, Binding sites: 201 -
210;
Page 22, Binding sites: 211 -
220;
Page 23, Binding sites: 221 -
230;
Page 24, Binding sites: 231 -
240;
Page 25, Binding sites: 241 -
250;
Page 26, Binding sites: 251 -
260;
Page 27, Binding sites: 261 -
270;
Page 28, Binding sites: 271 -
280;
Page 29, Binding sites: 281 -
287;
Binding sites:
The binding sites of Magnesium atom in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
(pdb code 5oy0). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 287 binding sites of Magnesium where determined in the
Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution, PDB code: 5oy0:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 1 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1011
b:49.2
occ:1.00
|
MG
|
A:CLA1011
|
0.0
|
49.2
|
1.0
|
ND
|
A:CLA1011
|
2.0
|
41.1
|
1.0
|
NB
|
A:CLA1011
|
2.0
|
44.2
|
1.0
|
NC
|
A:CLA1011
|
2.1
|
43.3
|
1.0
|
NA
|
A:CLA1011
|
2.2
|
44.2
|
1.0
|
NE2
|
A:HIS676
|
2.8
|
42.5
|
1.0
|
C4D
|
A:CLA1011
|
2.9
|
44.6
|
1.0
|
C4B
|
A:CLA1011
|
3.0
|
36.9
|
1.0
|
C1B
|
A:CLA1011
|
3.0
|
36.8
|
1.0
|
C1C
|
A:CLA1011
|
3.0
|
36.7
|
1.0
|
C4A
|
A:CLA1011
|
3.1
|
42.4
|
1.0
|
C1D
|
A:CLA1011
|
3.1
|
37.5
|
1.0
|
C4C
|
A:CLA1011
|
3.2
|
39.0
|
1.0
|
C1A
|
A:CLA1011
|
3.2
|
44.8
|
1.0
|
CHC
|
A:CLA1011
|
3.3
|
39.9
|
1.0
|
CHB
|
A:CLA1011
|
3.4
|
39.4
|
1.0
|
CHA
|
A:CLA1011
|
3.4
|
55.4
|
1.0
|
CHD
|
A:CLA1011
|
3.5
|
33.7
|
1.0
|
CAB
|
B:CLA1021
|
3.6
|
35.8
|
1.0
|
CHC
|
B:CLA1021
|
3.7
|
45.2
|
1.0
|
CE1
|
A:HIS676
|
3.7
|
45.4
|
1.0
|
CD2
|
A:HIS676
|
3.8
|
42.9
|
1.0
|
C3B
|
B:CLA1021
|
3.8
|
32.1
|
1.0
|
C4B
|
B:CLA1021
|
3.8
|
36.0
|
1.0
|
C3D
|
A:CLA1011
|
4.1
|
36.6
|
1.0
|
C3B
|
A:CLA1011
|
4.2
|
30.9
|
1.0
|
C2B
|
A:CLA1011
|
4.3
|
36.6
|
1.0
|
C2D
|
A:CLA1011
|
4.3
|
37.6
|
1.0
|
C2C
|
A:CLA1011
|
4.3
|
38.0
|
1.0
|
C3C
|
A:CLA1011
|
4.4
|
38.0
|
1.0
|
C3A
|
A:CLA1011
|
4.4
|
38.8
|
1.0
|
C1C
|
B:CLA1021
|
4.5
|
45.2
|
1.0
|
C2A
|
A:CLA1011
|
4.5
|
39.7
|
1.0
|
CZ
|
B:PHE617
|
4.5
|
47.3
|
1.0
|
C2B
|
B:CLA1021
|
4.7
|
39.9
|
1.0
|
NB
|
B:CLA1021
|
4.7
|
32.1
|
1.0
|
CBD
|
A:CLA1011
|
4.8
|
61.9
|
1.0
|
ND1
|
A:HIS676
|
4.9
|
45.3
|
1.0
|
CBB
|
B:CLA1021
|
4.9
|
37.3
|
1.0
|
CG
|
A:HIS676
|
4.9
|
38.0
|
1.0
|
|
Magnesium binding site 2 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 2 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1013
b:47.8
occ:1.00
|
MG
|
A:CLA1013
|
0.0
|
47.8
|
1.0
|
ND
|
A:CLA1013
|
2.0
|
41.2
|
1.0
|
NB
|
A:CLA1013
|
2.0
|
42.0
|
1.0
|
NC
|
A:CLA1013
|
2.1
|
36.6
|
1.0
|
NA
|
A:CLA1013
|
2.2
|
47.7
|
1.0
|
C4D
|
A:CLA1013
|
2.9
|
44.7
|
1.0
|
C4B
|
A:CLA1013
|
3.0
|
41.9
|
1.0
|
C1C
|
A:CLA1013
|
3.0
|
36.7
|
1.0
|
C1B
|
A:CLA1013
|
3.0
|
46.9
|
1.0
|
SD
|
A:MET684
|
3.1
|
40.6
|
1.0
|
C1D
|
A:CLA1013
|
3.1
|
48.6
|
1.0
|
C4A
|
A:CLA1013
|
3.1
|
54.0
|
1.0
|
C4C
|
A:CLA1013
|
3.2
|
35.0
|
1.0
|
C1A
|
A:CLA1013
|
3.2
|
49.4
|
1.0
|
CHC
|
A:CLA1013
|
3.3
|
37.4
|
1.0
|
CHB
|
A:CLA1013
|
3.4
|
55.5
|
1.0
|
CHA
|
A:CLA1013
|
3.5
|
47.9
|
1.0
|
NE1
|
B:TRP579
|
3.5
|
42.5
|
1.0
|
CHD
|
A:CLA1013
|
3.5
|
44.8
|
1.0
|
CG
|
A:MET684
|
3.8
|
41.4
|
1.0
|
CB
|
A:MET684
|
4.0
|
38.1
|
1.0
|
CE
|
A:MET684
|
4.1
|
41.5
|
1.0
|
C3D
|
A:CLA1013
|
4.1
|
54.4
|
1.0
|
CE2
|
B:TRP579
|
4.2
|
44.1
|
1.0
|
C3B
|
A:CLA1013
|
4.3
|
42.8
|
1.0
|
CZ2
|
B:TRP579
|
4.3
|
42.9
|
1.0
|
C2B
|
A:CLA1013
|
4.3
|
43.4
|
1.0
|
C2D
|
A:CLA1013
|
4.3
|
49.1
|
1.0
|
C2C
|
A:CLA1013
|
4.3
|
36.1
|
1.0
|
C3C
|
A:CLA1013
|
4.4
|
35.6
|
1.0
|
C3A
|
A:CLA1013
|
4.4
|
47.6
|
1.0
|
C2A
|
A:CLA1013
|
4.5
|
51.0
|
1.0
|
CD1
|
B:TRP579
|
4.5
|
45.1
|
1.0
|
CH2
|
A:TRP693
|
4.9
|
41.7
|
1.0
|
CBD
|
A:CLA1013
|
4.9
|
54.1
|
1.0
|
|
Magnesium binding site 3 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 3 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1102
b:47.8
occ:1.00
|
MG
|
A:CLA1102
|
0.0
|
47.8
|
1.0
|
ND
|
A:CLA1102
|
2.0
|
42.5
|
1.0
|
NB
|
A:CLA1102
|
2.0
|
45.0
|
1.0
|
NC
|
A:CLA1102
|
2.1
|
40.1
|
1.0
|
NA
|
A:CLA1102
|
2.2
|
42.0
|
1.0
|
C4D
|
A:CLA1102
|
2.9
|
34.2
|
1.0
|
CE1
|
A:HIS56
|
3.0
|
47.5
|
1.0
|
C4B
|
A:CLA1102
|
3.0
|
41.5
|
1.0
|
C1B
|
A:CLA1102
|
3.0
|
39.4
|
1.0
|
C1C
|
A:CLA1102
|
3.1
|
40.9
|
1.0
|
C1D
|
A:CLA1102
|
3.1
|
39.6
|
1.0
|
C4A
|
A:CLA1102
|
3.1
|
44.1
|
1.0
|
C1A
|
A:CLA1102
|
3.2
|
44.2
|
1.0
|
C4C
|
A:CLA1102
|
3.2
|
44.5
|
1.0
|
CHC
|
A:CLA1102
|
3.3
|
32.7
|
1.0
|
CHB
|
A:CLA1102
|
3.4
|
40.2
|
1.0
|
C9
|
A:CLA1109
|
3.5
|
63.2
|
1.0
|
CHA
|
A:CLA1102
|
3.5
|
38.1
|
1.0
|
CHD
|
A:CLA1102
|
3.5
|
43.0
|
1.0
|
NE2
|
A:HIS56
|
3.7
|
43.2
|
1.0
|
C8
|
A:CLA1109
|
3.9
|
65.1
|
1.0
|
ND1
|
A:HIS56
|
4.0
|
48.5
|
1.0
|
C3D
|
A:CLA1102
|
4.2
|
38.7
|
1.0
|
C3B
|
A:CLA1102
|
4.3
|
40.4
|
1.0
|
C2B
|
A:CLA1102
|
4.3
|
40.3
|
1.0
|
C2D
|
A:CLA1102
|
4.3
|
45.0
|
1.0
|
C2C
|
A:CLA1102
|
4.4
|
44.9
|
1.0
|
C3C
|
A:CLA1102
|
4.4
|
38.3
|
1.0
|
C3A
|
A:CLA1102
|
4.5
|
50.0
|
1.0
|
C2A
|
A:CLA1102
|
4.5
|
50.0
|
1.0
|
C5
|
A:CLA1109
|
4.7
|
65.7
|
1.0
|
C10
|
A:CLA1109
|
4.7
|
65.8
|
1.0
|
CBD
|
A:CLA1102
|
4.9
|
39.1
|
1.0
|
CBB
|
A:CLA1103
|
5.0
|
37.5
|
1.0
|
|
Magnesium binding site 4 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 4 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1103
b:51.6
occ:1.00
|
MG
|
A:CLA1103
|
0.0
|
51.6
|
1.0
|
ND
|
A:CLA1103
|
2.0
|
42.0
|
1.0
|
NB
|
A:CLA1103
|
2.0
|
44.7
|
1.0
|
NC
|
A:CLA1103
|
2.1
|
30.7
|
1.0
|
NA
|
A:CLA1103
|
2.2
|
40.6
|
1.0
|
NE2
|
A:HIS76
|
2.8
|
41.6
|
1.0
|
C4D
|
A:CLA1103
|
2.9
|
41.5
|
1.0
|
C4B
|
A:CLA1103
|
3.0
|
39.5
|
1.0
|
C1C
|
A:CLA1103
|
3.0
|
30.4
|
1.0
|
C1B
|
A:CLA1103
|
3.1
|
41.0
|
1.0
|
C1D
|
A:CLA1103
|
3.1
|
31.7
|
1.0
|
C4A
|
A:CLA1103
|
3.1
|
35.0
|
1.0
|
C1A
|
A:CLA1103
|
3.2
|
40.2
|
1.0
|
C4C
|
A:CLA1103
|
3.2
|
30.5
|
1.0
|
CMB
|
A:CLA1128
|
3.2
|
43.0
|
1.0
|
CHC
|
A:CLA1103
|
3.3
|
35.6
|
1.0
|
CHB
|
A:CLA1103
|
3.4
|
28.9
|
1.0
|
CD2
|
A:HIS76
|
3.5
|
39.4
|
1.0
|
CHA
|
A:CLA1103
|
3.5
|
38.5
|
1.0
|
CHD
|
A:CLA1103
|
3.5
|
32.2
|
1.0
|
CE1
|
A:HIS76
|
3.9
|
38.7
|
1.0
|
C3D
|
A:CLA1103
|
4.2
|
34.4
|
1.0
|
C3B
|
A:CLA1103
|
4.3
|
42.9
|
1.0
|
C2B
|
A:CLA1103
|
4.3
|
44.8
|
1.0
|
C2C
|
A:CLA1103
|
4.3
|
34.4
|
1.0
|
C2D
|
A:CLA1103
|
4.3
|
31.8
|
1.0
|
C3C
|
A:CLA1103
|
4.4
|
31.2
|
1.0
|
C2B
|
A:CLA1128
|
4.4
|
39.3
|
1.0
|
C3A
|
A:CLA1103
|
4.4
|
35.5
|
1.0
|
C2A
|
A:CLA1103
|
4.5
|
42.0
|
1.0
|
CBB
|
A:CLA1128
|
4.5
|
29.9
|
1.0
|
CG2
|
A:ILE72
|
4.7
|
39.0
|
1.0
|
CG
|
A:HIS76
|
4.7
|
42.2
|
1.0
|
ND1
|
A:HIS76
|
4.9
|
39.6
|
1.0
|
CBD
|
A:CLA1103
|
4.9
|
43.9
|
1.0
|
|
Magnesium binding site 5 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 5 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1104
b:45.3
occ:1.00
|
MG
|
A:CLA1104
|
0.0
|
45.3
|
1.0
|
ND
|
A:CLA1104
|
2.0
|
41.6
|
1.0
|
NB
|
A:CLA1104
|
2.0
|
41.1
|
1.0
|
NC
|
A:CLA1104
|
2.1
|
39.0
|
1.0
|
NA
|
A:CLA1104
|
2.2
|
37.6
|
1.0
|
NE2
|
A:HIS79
|
2.8
|
39.5
|
1.0
|
C4D
|
A:CLA1104
|
2.9
|
39.2
|
1.0
|
C4B
|
A:CLA1104
|
3.0
|
38.1
|
1.0
|
C1B
|
A:CLA1104
|
3.0
|
41.4
|
1.0
|
C1C
|
A:CLA1104
|
3.0
|
40.4
|
1.0
|
C1D
|
A:CLA1104
|
3.1
|
31.0
|
1.0
|
C4A
|
A:CLA1104
|
3.1
|
34.6
|
1.0
|
C4C
|
A:CLA1104
|
3.2
|
41.6
|
1.0
|
C1A
|
A:CLA1104
|
3.2
|
37.5
|
1.0
|
CHC
|
A:CLA1104
|
3.3
|
40.4
|
1.0
|
CHB
|
A:CLA1104
|
3.4
|
33.2
|
1.0
|
C16
|
A:CLA1104
|
3.4
|
48.1
|
1.0
|
CHA
|
A:CLA1104
|
3.5
|
46.8
|
1.0
|
CHD
|
A:CLA1104
|
3.5
|
29.9
|
1.0
|
CD2
|
A:HIS79
|
3.6
|
40.0
|
1.0
|
CE1
|
A:HIS79
|
3.9
|
42.4
|
1.0
|
C3D
|
A:CLA1104
|
4.1
|
44.1
|
1.0
|
C17
|
A:CLA1104
|
4.2
|
41.6
|
1.0
|
C3B
|
A:CLA1104
|
4.3
|
32.8
|
1.0
|
C2B
|
A:CLA1104
|
4.3
|
40.3
|
1.0
|
C2D
|
A:CLA1104
|
4.3
|
40.2
|
1.0
|
C2C
|
A:CLA1104
|
4.3
|
42.6
|
1.0
|
C3C
|
A:CLA1104
|
4.4
|
48.0
|
1.0
|
C3A
|
A:CLA1104
|
4.5
|
34.6
|
1.0
|
C2A
|
A:CLA1104
|
4.5
|
33.6
|
1.0
|
C15
|
A:CLA1104
|
4.6
|
50.0
|
1.0
|
C14
|
A:CLA1104
|
4.8
|
27.8
|
1.0
|
C13
|
A:CLA1104
|
4.8
|
40.8
|
1.0
|
C18
|
A:CLA1104
|
4.8
|
30.9
|
1.0
|
CG
|
A:HIS79
|
4.8
|
42.7
|
1.0
|
CBB
|
A:CLA1127
|
4.9
|
38.4
|
1.0
|
CBD
|
A:CLA1104
|
4.9
|
52.3
|
1.0
|
ND1
|
A:HIS79
|
4.9
|
40.3
|
1.0
|
CMA
|
A:CLA1103
|
5.0
|
32.7
|
1.0
|
|
Magnesium binding site 6 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 6 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1105
b:72.5
occ:1.00
|
MG
|
A:CLA1105
|
0.0
|
72.5
|
1.0
|
ND
|
A:CLA1105
|
2.0
|
68.5
|
1.0
|
NB
|
A:CLA1105
|
2.0
|
69.3
|
1.0
|
NC
|
A:CLA1105
|
2.1
|
70.1
|
1.0
|
NA
|
A:CLA1105
|
2.2
|
70.2
|
1.0
|
NE2
|
A:HIS93
|
2.8
|
52.2
|
1.0
|
C4D
|
A:CLA1105
|
2.9
|
66.3
|
1.0
|
C4B
|
A:CLA1105
|
3.0
|
67.0
|
1.0
|
C1B
|
A:CLA1105
|
3.0
|
64.4
|
1.0
|
C1C
|
A:CLA1105
|
3.0
|
68.4
|
1.0
|
C1D
|
A:CLA1105
|
3.1
|
66.7
|
1.0
|
C4A
|
A:CLA1105
|
3.1
|
69.4
|
1.0
|
C1A
|
A:CLA1105
|
3.2
|
65.0
|
1.0
|
C4C
|
A:CLA1105
|
3.2
|
68.6
|
1.0
|
CHC
|
A:CLA1105
|
3.3
|
68.2
|
1.0
|
CD2
|
A:HIS93
|
3.4
|
51.9
|
1.0
|
CHB
|
A:CLA1105
|
3.4
|
64.4
|
1.0
|
CHA
|
A:CLA1105
|
3.5
|
67.4
|
1.0
|
CHD
|
A:CLA1105
|
3.6
|
70.9
|
1.0
|
C15
|
A:BCR4019
|
3.9
|
75.8
|
1.0
|
C16
|
A:BCR4019
|
4.0
|
77.6
|
1.0
|
CE1
|
A:HIS93
|
4.0
|
60.0
|
1.0
|
C3D
|
A:CLA1105
|
4.2
|
65.8
|
1.0
|
C3B
|
A:CLA1105
|
4.3
|
65.5
|
1.0
|
C2B
|
A:CLA1105
|
4.3
|
68.6
|
1.0
|
C2D
|
A:CLA1105
|
4.3
|
63.8
|
1.0
|
C2C
|
A:CLA1105
|
4.4
|
67.8
|
1.0
|
C3C
|
A:CLA1105
|
4.4
|
67.5
|
1.0
|
C3A
|
A:CLA1105
|
4.5
|
66.1
|
1.0
|
C2A
|
A:CLA1105
|
4.5
|
58.1
|
1.0
|
C14
|
A:BCR4019
|
4.7
|
75.3
|
1.0
|
C35
|
A:BCR4019
|
4.7
|
83.3
|
1.0
|
CG
|
A:HIS93
|
4.7
|
56.7
|
1.0
|
CBD
|
A:CLA1105
|
4.9
|
68.9
|
1.0
|
ND1
|
A:HIS93
|
5.0
|
59.3
|
1.0
|
C4
|
A:CLA1107
|
5.0
|
76.5
|
1.0
|
|
Magnesium binding site 7 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 7 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1106
b:40.9
occ:1.00
|
MG
|
A:CLA1106
|
0.0
|
40.9
|
1.0
|
ND
|
A:CLA1106
|
2.0
|
41.8
|
1.0
|
NB
|
A:CLA1106
|
2.0
|
39.6
|
1.0
|
NC
|
A:CLA1106
|
2.1
|
33.5
|
1.0
|
NA
|
A:CLA1106
|
2.2
|
38.7
|
1.0
|
OE1
|
A:GLN115
|
2.8
|
61.1
|
1.0
|
C4D
|
A:CLA1106
|
2.9
|
31.2
|
1.0
|
C4B
|
A:CLA1106
|
3.0
|
42.9
|
1.0
|
C1C
|
A:CLA1106
|
3.0
|
41.0
|
1.0
|
C1B
|
A:CLA1106
|
3.0
|
42.5
|
1.0
|
C1D
|
A:CLA1106
|
3.1
|
29.0
|
1.0
|
C4A
|
A:CLA1106
|
3.1
|
46.5
|
1.0
|
C1A
|
A:CLA1106
|
3.2
|
46.0
|
1.0
|
C4C
|
A:CLA1106
|
3.2
|
39.6
|
1.0
|
CHC
|
A:CLA1106
|
3.3
|
43.1
|
1.0
|
CHB
|
A:CLA1106
|
3.4
|
43.7
|
1.0
|
NE2
|
A:GLN115
|
3.4
|
48.7
|
1.0
|
CD
|
A:GLN115
|
3.4
|
51.6
|
1.0
|
CHA
|
A:CLA1106
|
3.5
|
32.1
|
1.0
|
CHD
|
A:CLA1106
|
3.6
|
34.5
|
1.0
|
C4
|
A:CLA1126
|
4.0
|
49.7
|
1.0
|
C3D
|
A:CLA1106
|
4.2
|
28.0
|
1.0
|
C3B
|
A:CLA1106
|
4.2
|
43.7
|
1.0
|
C2B
|
A:CLA1106
|
4.3
|
44.0
|
1.0
|
C3
|
A:CLA1126
|
4.3
|
61.2
|
1.0
|
C2D
|
A:CLA1106
|
4.3
|
31.9
|
1.0
|
C2C
|
A:CLA1106
|
4.3
|
40.9
|
1.0
|
C3C
|
A:CLA1106
|
4.4
|
39.9
|
1.0
|
C2
|
A:CLA1126
|
4.5
|
73.3
|
1.0
|
C3A
|
A:CLA1106
|
4.5
|
48.5
|
1.0
|
C1
|
A:CLA1126
|
4.5
|
75.5
|
1.0
|
C2A
|
A:CLA1106
|
4.5
|
56.5
|
1.0
|
CG
|
A:GLN115
|
4.8
|
54.1
|
1.0
|
CBD
|
A:CLA1106
|
4.9
|
40.7
|
1.0
|
|
Magnesium binding site 8 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 8 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1107
b:57.5
occ:1.00
|
MG
|
A:CLA1107
|
0.0
|
57.5
|
1.0
|
ND
|
A:CLA1107
|
2.0
|
54.2
|
1.0
|
NB
|
A:CLA1107
|
2.0
|
51.0
|
1.0
|
NC
|
A:CLA1107
|
2.1
|
48.9
|
1.0
|
NA
|
A:CLA1107
|
2.2
|
52.3
|
1.0
|
OE1
|
A:GLN123
|
2.8
|
79.9
|
1.0
|
C4D
|
A:CLA1107
|
2.9
|
47.8
|
1.0
|
C4B
|
A:CLA1107
|
3.0
|
45.9
|
1.0
|
C1C
|
A:CLA1107
|
3.0
|
52.3
|
1.0
|
C1B
|
A:CLA1107
|
3.0
|
45.6
|
1.0
|
C1D
|
A:CLA1107
|
3.1
|
49.8
|
1.0
|
C4A
|
A:CLA1107
|
3.1
|
53.5
|
1.0
|
C1A
|
A:CLA1107
|
3.2
|
50.6
|
1.0
|
C4C
|
A:CLA1107
|
3.2
|
50.5
|
1.0
|
NE2
|
A:GLN123
|
3.2
|
58.8
|
1.0
|
CD
|
A:GLN123
|
3.2
|
69.4
|
1.0
|
CHC
|
A:CLA1107
|
3.3
|
53.3
|
1.0
|
CHB
|
A:CLA1107
|
3.4
|
44.9
|
1.0
|
CHA
|
A:CLA1107
|
3.4
|
50.9
|
1.0
|
CHD
|
A:CLA1107
|
3.6
|
48.7
|
1.0
|
C14
|
A:CLA1126
|
3.6
|
62.7
|
1.0
|
C3D
|
A:CLA1107
|
4.2
|
49.9
|
1.0
|
C3B
|
A:CLA1107
|
4.2
|
47.7
|
1.0
|
C2B
|
A:CLA1107
|
4.3
|
47.5
|
1.0
|
C2D
|
A:CLA1107
|
4.3
|
50.8
|
1.0
|
C2C
|
A:CLA1107
|
4.4
|
48.0
|
1.0
|
C3C
|
A:CLA1107
|
4.4
|
53.9
|
1.0
|
C3A
|
A:CLA1107
|
4.5
|
59.3
|
1.0
|
C2A
|
A:CLA1107
|
4.5
|
53.8
|
1.0
|
CG
|
A:GLN123
|
4.5
|
65.5
|
1.0
|
C16
|
A:CLA1126
|
4.8
|
53.1
|
1.0
|
CB
|
A:GLN123
|
4.8
|
63.5
|
1.0
|
CBD
|
A:CLA1107
|
4.9
|
57.4
|
1.0
|
|
Magnesium binding site 9 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 9 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1108
b:58.4
occ:1.00
|
MG
|
A:CLA1108
|
0.0
|
58.4
|
1.0
|
ND
|
A:CLA1108
|
2.0
|
55.0
|
1.0
|
NB
|
A:CLA1108
|
2.0
|
52.0
|
1.0
|
NC
|
A:CLA1108
|
2.1
|
59.7
|
1.0
|
NA
|
A:CLA1108
|
2.2
|
56.6
|
1.0
|
NE2
|
A:HIS179
|
2.8
|
49.2
|
1.0
|
C4D
|
A:CLA1108
|
2.9
|
56.8
|
1.0
|
C4B
|
A:CLA1108
|
3.0
|
51.0
|
1.0
|
C1C
|
A:CLA1108
|
3.0
|
56.5
|
1.0
|
C1B
|
A:CLA1108
|
3.1
|
46.5
|
1.0
|
C1D
|
A:CLA1108
|
3.1
|
55.8
|
1.0
|
C4A
|
A:CLA1108
|
3.1
|
54.0
|
1.0
|
C1A
|
A:CLA1108
|
3.2
|
54.8
|
1.0
|
C4C
|
A:CLA1108
|
3.2
|
60.0
|
1.0
|
CHC
|
A:CLA1108
|
3.3
|
53.0
|
1.0
|
CHB
|
A:CLA1108
|
3.4
|
44.3
|
1.0
|
CHA
|
A:CLA1108
|
3.5
|
58.6
|
1.0
|
CHD
|
A:CLA1108
|
3.5
|
57.3
|
1.0
|
CE1
|
A:HIS179
|
3.6
|
49.9
|
1.0
|
CD2
|
A:HIS179
|
3.8
|
49.0
|
1.0
|
O
|
A:HOH8069
|
3.9
|
58.1
|
1.0
|
C3D
|
A:CLA1108
|
4.2
|
57.5
|
1.0
|
C3B
|
A:CLA1108
|
4.3
|
47.3
|
1.0
|
C2B
|
A:CLA1108
|
4.3
|
45.3
|
1.0
|
C2D
|
A:CLA1108
|
4.3
|
58.0
|
1.0
|
C2C
|
A:CLA1108
|
4.3
|
57.6
|
1.0
|
C3C
|
A:CLA1108
|
4.4
|
60.9
|
1.0
|
NH1
|
A:ARG8
|
4.4
|
64.8
|
1.0
|
C3A
|
A:CLA1108
|
4.5
|
53.3
|
1.0
|
C2A
|
A:CLA1108
|
4.5
|
59.0
|
1.0
|
ND1
|
A:HIS179
|
4.8
|
51.7
|
1.0
|
CG
|
A:HIS179
|
4.9
|
51.3
|
1.0
|
CBD
|
A:CLA1108
|
4.9
|
63.3
|
1.0
|
|
Magnesium binding site 10 out
of 287 in 5oy0
Go back to
Magnesium Binding Sites List in 5oy0
Magnesium binding site 10 out
of 287 in the Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Structure of Synechocystis Photosystem I Trimer at 2.5A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg1109
b:49.6
occ:1.00
|
MG
|
A:CLA1109
|
0.0
|
49.6
|
1.0
|
ND
|
A:CLA1109
|
2.0
|
45.5
|
1.0
|
NB
|
A:CLA1109
|
2.0
|
55.4
|
1.0
|
NC
|
A:CLA1109
|
2.1
|
51.0
|
1.0
|
NA
|
A:CLA1109
|
2.2
|
54.2
|
1.0
|
O1A
|
A:CLA1102
|
2.8
|
67.8
|
1.0
|
NE2
|
A:HIS181
|
2.8
|
50.8
|
1.0
|
C4D
|
A:CLA1109
|
2.9
|
45.3
|
1.0
|
C4B
|
A:CLA1109
|
3.0
|
53.7
|
1.0
|
C1C
|
A:CLA1109
|
3.0
|
53.2
|
1.0
|
C1B
|
A:CLA1109
|
3.0
|
56.9
|
1.0
|
C1D
|
A:CLA1109
|
3.1
|
46.5
|
1.0
|
C4A
|
A:CLA1109
|
3.1
|
54.4
|
1.0
|
C4C
|
A:CLA1109
|
3.2
|
56.8
|
1.0
|
C1A
|
A:CLA1109
|
3.2
|
53.0
|
1.0
|
CHC
|
A:CLA1109
|
3.3
|
54.2
|
1.0
|
CHB
|
A:CLA1109
|
3.4
|
54.3
|
1.0
|
CHA
|
A:CLA1109
|
3.5
|
45.0
|
1.0
|
CD2
|
A:HIS181
|
3.5
|
51.8
|
1.0
|
CHD
|
A:CLA1109
|
3.5
|
55.8
|
1.0
|
CGA
|
A:CLA1102
|
3.8
|
71.6
|
1.0
|
CE1
|
A:HIS181
|
3.9
|
52.8
|
1.0
|
C3D
|
A:CLA1109
|
4.2
|
52.0
|
1.0
|
C3B
|
A:CLA1109
|
4.3
|
53.6
|
1.0
|
C2B
|
A:CLA1109
|
4.3
|
56.9
|
1.0
|
C2D
|
A:CLA1109
|
4.3
|
45.4
|
1.0
|
C2C
|
A:CLA1109
|
4.3
|
55.1
|
1.0
|
C3C
|
A:CLA1109
|
4.4
|
57.4
|
1.0
|
O2A
|
A:CLA1102
|
4.4
|
69.0
|
1.0
|
C3A
|
A:CLA1109
|
4.5
|
59.9
|
1.0
|
C1
|
A:CLA1102
|
4.5
|
59.9
|
1.0
|
C2A
|
A:CLA1109
|
4.5
|
55.6
|
1.0
|
CBA
|
A:CLA1102
|
4.7
|
67.6
|
1.0
|
CG
|
A:HIS181
|
4.7
|
53.6
|
1.0
|
CD2
|
A:TYR180
|
4.8
|
47.8
|
1.0
|
CAA
|
A:CLA1102
|
4.9
|
51.9
|
1.0
|
ND1
|
A:HIS181
|
4.9
|
56.3
|
1.0
|
CBD
|
A:CLA1109
|
5.0
|
48.0
|
1.0
|
CD1
|
A:TRP177
|
5.0
|
52.8
|
1.0
|
CBA
|
A:CLA1109
|
5.0
|
47.3
|
1.0
|
|
Reference:
T.Malavath,
I.Caspy,
S.Y.Netzer-El,
D.Klaiman,
N.Nelson.
Structure and Function of Wild-Type and Subunit-Depleted Photosystem I in Synechocystis. Biochim. Biophys. Acta V.1859 645 2018.
ISSN: ISSN 0006-3002
PubMed: 29414678
DOI: 10.1016/J.BBABIO.2018.02.002
Page generated: Mon Sep 30 01:25:24 2024
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