Magnesium in PDB 5zzn: Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Enzymatic activity of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
All present enzymatic activity of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus:
1.10.3.9;
Protein crystallography data
The structure of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus, PDB code: 5zzn
was solved by
Y.Nakajima,
Y.Umena,
R.Nagao,
K.Endo,
K.Kobayashi,
F.Akita,
M.Suga,
H.Wada,
T.Noguchi,
J.R.Shen,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
19.99 /
2.10
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
122.250,
228.430,
287.120,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
15.4 /
19.7
|
Other elements in 5zzn:
The structure of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus also contains other interesting chemical elements:
Magnesium Binding Sites:
Magnesium binding site 1 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 1 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg404
b:27.9
occ:1.00
|
MG
|
A:CLA404
|
0.0
|
27.9
|
1.0
|
ND
|
A:CLA404
|
2.0
|
27.0
|
1.0
|
NB
|
A:CLA404
|
2.1
|
26.0
|
1.0
|
NC
|
A:CLA404
|
2.1
|
24.3
|
1.0
|
NA
|
A:CLA404
|
2.1
|
27.5
|
1.0
|
NE2
|
A:HIS198
|
2.2
|
29.5
|
1.0
|
C4D
|
A:CLA404
|
2.9
|
26.1
|
1.0
|
C4B
|
A:CLA404
|
3.0
|
24.3
|
1.0
|
C1A
|
A:CLA404
|
3.0
|
28.2
|
1.0
|
C1C
|
A:CLA404
|
3.1
|
27.6
|
1.0
|
CE1
|
A:HIS198
|
3.1
|
25.7
|
1.0
|
C1B
|
A:CLA404
|
3.1
|
25.3
|
1.0
|
C4A
|
A:CLA404
|
3.1
|
27.7
|
1.0
|
C4C
|
A:CLA404
|
3.1
|
23.0
|
1.0
|
C1D
|
A:CLA404
|
3.1
|
25.6
|
1.0
|
CD2
|
A:HIS198
|
3.3
|
29.0
|
1.0
|
CHC
|
A:CLA404
|
3.4
|
24.9
|
1.0
|
CHA
|
A:CLA404
|
3.4
|
29.2
|
1.0
|
CHB
|
A:CLA404
|
3.5
|
25.1
|
1.0
|
CHD
|
A:CLA404
|
3.6
|
25.8
|
1.0
|
CE
|
A:MET183
|
4.1
|
29.2
|
1.0
|
C3D
|
A:CLA404
|
4.2
|
24.3
|
1.0
|
ND1
|
A:HIS198
|
4.3
|
26.8
|
1.0
|
C3B
|
A:CLA404
|
4.3
|
23.0
|
1.0
|
C2B
|
A:CLA404
|
4.4
|
25.3
|
1.0
|
CG
|
A:HIS198
|
4.4
|
28.2
|
1.0
|
C2D
|
A:CLA404
|
4.4
|
27.0
|
1.0
|
C3C
|
A:CLA404
|
4.4
|
23.1
|
1.0
|
C2C
|
A:CLA404
|
4.4
|
26.1
|
1.0
|
C3A
|
A:CLA404
|
4.4
|
28.1
|
1.0
|
C2A
|
A:CLA404
|
4.4
|
29.9
|
1.0
|
CAB
|
D:CLA403
|
4.6
|
31.1
|
1.0
|
CBD
|
A:CLA404
|
4.9
|
27.1
|
1.0
|
|
Magnesium binding site 2 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 2 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg405
b:26.2
occ:1.00
|
MG
|
A:CLA405
|
0.0
|
26.2
|
1.0
|
O
|
A:HOH597
|
2.0
|
25.8
|
1.0
|
NA
|
A:CLA405
|
2.0
|
24.4
|
1.0
|
NC
|
A:CLA405
|
2.1
|
25.5
|
1.0
|
ND
|
A:CLA405
|
2.1
|
23.8
|
1.0
|
NB
|
A:CLA405
|
2.1
|
25.1
|
1.0
|
C4D
|
A:CLA405
|
2.9
|
23.2
|
1.0
|
C1A
|
A:CLA405
|
3.0
|
28.6
|
1.0
|
C1B
|
A:CLA405
|
3.0
|
22.9
|
1.0
|
C4B
|
A:CLA405
|
3.0
|
28.4
|
1.0
|
C4A
|
A:CLA405
|
3.1
|
28.3
|
1.0
|
C4C
|
A:CLA405
|
3.1
|
25.2
|
1.0
|
C1C
|
A:CLA405
|
3.1
|
28.8
|
1.0
|
C1D
|
A:CLA405
|
3.2
|
23.9
|
1.0
|
CHA
|
A:CLA405
|
3.4
|
23.4
|
1.0
|
CHB
|
A:CLA405
|
3.4
|
22.3
|
1.0
|
CHC
|
A:CLA405
|
3.5
|
28.7
|
1.0
|
CHD
|
A:CLA405
|
3.6
|
26.0
|
1.0
|
O
|
A:HOH606
|
4.0
|
26.8
|
1.0
|
CBB
|
A:PHO407
|
4.0
|
31.5
|
1.0
|
C3D
|
A:CLA405
|
4.2
|
23.1
|
1.0
|
C3A
|
A:CLA405
|
4.3
|
24.6
|
1.0
|
C3C
|
A:CLA405
|
4.3
|
26.1
|
1.0
|
C2A
|
A:CLA405
|
4.4
|
27.6
|
1.0
|
C2C
|
A:CLA405
|
4.4
|
27.7
|
1.0
|
C2B
|
A:CLA405
|
4.4
|
23.7
|
1.0
|
C3B
|
A:CLA405
|
4.4
|
27.2
|
1.0
|
CG2
|
A:THR179
|
4.4
|
29.2
|
1.0
|
C2D
|
A:CLA405
|
4.4
|
25.4
|
1.0
|
OG1
|
A:THR179
|
4.6
|
29.9
|
1.0
|
C19
|
A:PHO407
|
4.8
|
27.2
|
1.0
|
CBA
|
A:CLA405
|
4.8
|
28.0
|
1.0
|
CBD
|
A:CLA405
|
4.8
|
23.2
|
1.0
|
|
Magnesium binding site 3 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 3 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg406
b:31.9
occ:1.00
|
MG
|
A:CLA406
|
0.0
|
31.9
|
1.0
|
NB
|
A:CLA406
|
2.0
|
33.6
|
1.0
|
NC
|
A:CLA406
|
2.0
|
30.8
|
1.0
|
ND
|
A:CLA406
|
2.0
|
31.2
|
1.0
|
O
|
A:HOH619
|
2.1
|
33.0
|
1.0
|
NA
|
A:CLA406
|
2.1
|
30.2
|
1.0
|
C4D
|
A:CLA406
|
2.9
|
29.5
|
1.0
|
C4B
|
A:CLA406
|
3.0
|
29.3
|
1.0
|
C1B
|
A:CLA406
|
3.0
|
29.8
|
1.0
|
C4C
|
A:CLA406
|
3.0
|
28.5
|
1.0
|
C1C
|
A:CLA406
|
3.0
|
29.8
|
1.0
|
C4A
|
A:CLA406
|
3.1
|
30.6
|
1.0
|
C1D
|
A:CLA406
|
3.1
|
28.1
|
1.0
|
C1A
|
A:CLA406
|
3.1
|
31.4
|
1.0
|
CHB
|
A:CLA406
|
3.3
|
28.1
|
1.0
|
CHC
|
A:CLA406
|
3.4
|
27.6
|
1.0
|
CHA
|
A:CLA406
|
3.5
|
31.5
|
1.0
|
CHD
|
A:CLA406
|
3.5
|
25.2
|
1.0
|
CBB
|
D:PHO404
|
3.9
|
28.7
|
1.0
|
O
|
A:HOH610
|
4.1
|
28.0
|
1.0
|
C3D
|
A:CLA406
|
4.1
|
27.4
|
1.0
|
C2D
|
A:CLA406
|
4.3
|
29.2
|
1.0
|
C2B
|
A:CLA406
|
4.3
|
30.5
|
1.0
|
C3B
|
A:CLA406
|
4.3
|
31.9
|
1.0
|
C3C
|
A:CLA406
|
4.3
|
27.0
|
1.0
|
C2C
|
A:CLA406
|
4.3
|
28.9
|
1.0
|
C3A
|
A:CLA406
|
4.4
|
28.9
|
1.0
|
C2A
|
A:CLA406
|
4.5
|
35.3
|
1.0
|
CG2
|
D:ILE178
|
4.5
|
32.7
|
1.0
|
C20
|
D:PHO404
|
4.7
|
25.8
|
1.0
|
CE2
|
A:PHE206
|
4.8
|
27.4
|
1.0
|
CBD
|
A:CLA406
|
4.9
|
30.6
|
1.0
|
CBA
|
A:CLA406
|
5.0
|
34.4
|
1.0
|
|
Magnesium binding site 4 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 4 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg408
b:32.0
occ:1.00
|
MG
|
A:CLA408
|
0.0
|
32.0
|
1.0
|
ND
|
A:CLA408
|
2.0
|
32.9
|
1.0
|
NB
|
A:CLA408
|
2.0
|
31.5
|
1.0
|
NA
|
A:CLA408
|
2.1
|
33.7
|
1.0
|
NC
|
A:CLA408
|
2.1
|
34.2
|
1.0
|
NE2
|
A:HIS118
|
2.3
|
32.0
|
1.0
|
C4D
|
A:CLA408
|
2.9
|
30.9
|
1.0
|
C4B
|
A:CLA408
|
3.0
|
28.1
|
1.0
|
C1B
|
A:CLA408
|
3.1
|
31.0
|
1.0
|
C1A
|
A:CLA408
|
3.1
|
32.0
|
1.0
|
C1D
|
A:CLA408
|
3.1
|
34.1
|
1.0
|
C4A
|
A:CLA408
|
3.1
|
32.5
|
1.0
|
CE1
|
A:HIS118
|
3.1
|
35.0
|
1.0
|
C4C
|
A:CLA408
|
3.1
|
29.9
|
1.0
|
C1C
|
A:CLA408
|
3.1
|
32.0
|
1.0
|
CD2
|
A:HIS118
|
3.4
|
33.0
|
1.0
|
CHC
|
A:CLA408
|
3.5
|
30.3
|
1.0
|
CHA
|
A:CLA408
|
3.5
|
25.7
|
1.0
|
CHB
|
A:CLA408
|
3.5
|
30.0
|
1.0
|
CHD
|
A:CLA408
|
3.6
|
32.6
|
1.0
|
C3D
|
A:CLA408
|
4.2
|
28.4
|
1.0
|
C2D
|
A:CLA408
|
4.3
|
31.2
|
1.0
|
ND1
|
A:HIS118
|
4.3
|
31.2
|
1.0
|
CG1
|
I:VAL8
|
4.3
|
33.6
|
1.0
|
C2B
|
A:CLA408
|
4.3
|
30.1
|
1.0
|
C3B
|
A:CLA408
|
4.3
|
29.5
|
1.0
|
C3A
|
A:CLA408
|
4.4
|
34.5
|
1.0
|
C2A
|
A:CLA408
|
4.4
|
34.4
|
1.0
|
C3C
|
A:CLA408
|
4.4
|
32.6
|
1.0
|
C2C
|
A:CLA408
|
4.4
|
31.1
|
1.0
|
CG
|
A:HIS118
|
4.4
|
31.1
|
1.0
|
CG2
|
I:VAL12
|
4.5
|
44.3
|
1.0
|
CBD
|
A:CLA408
|
4.9
|
33.2
|
1.0
|
CMA
|
A:CLA408
|
5.0
|
36.8
|
1.0
|
|
Magnesium binding site 5 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 5 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg602
b:45.1
occ:1.00
|
MG
|
B:CLA602
|
0.0
|
45.1
|
1.0
|
NB
|
B:CLA602
|
2.0
|
46.6
|
1.0
|
NC
|
B:CLA602
|
2.0
|
41.1
|
1.0
|
O
|
B:HOH705
|
2.1
|
43.0
|
1.0
|
ND
|
B:CLA602
|
2.1
|
50.1
|
1.0
|
NA
|
B:CLA602
|
2.3
|
47.8
|
1.0
|
C4B
|
B:CLA602
|
2.9
|
42.2
|
1.0
|
C1C
|
B:CLA602
|
2.9
|
42.7
|
1.0
|
C4D
|
B:CLA602
|
3.0
|
51.2
|
1.0
|
C4C
|
B:CLA602
|
3.1
|
40.0
|
1.0
|
C1B
|
B:CLA602
|
3.1
|
43.2
|
1.0
|
C1D
|
B:CLA602
|
3.2
|
48.5
|
1.0
|
CHC
|
B:CLA602
|
3.2
|
40.6
|
1.0
|
C1A
|
B:CLA602
|
3.2
|
55.6
|
1.0
|
C4A
|
B:CLA602
|
3.3
|
47.6
|
1.0
|
CHB
|
B:CLA602
|
3.6
|
46.0
|
1.0
|
CHD
|
B:CLA602
|
3.6
|
41.4
|
1.0
|
CHA
|
B:CLA602
|
3.6
|
51.5
|
1.0
|
C10
|
B:CLA602
|
3.9
|
73.0
|
1.0
|
CE2
|
B:PHE190
|
4.2
|
48.8
|
1.0
|
O
|
B:TRP185
|
4.2
|
48.5
|
1.0
|
C3B
|
B:CLA602
|
4.3
|
40.0
|
1.0
|
C2C
|
B:CLA602
|
4.3
|
44.3
|
1.0
|
C3D
|
B:CLA602
|
4.3
|
53.5
|
1.0
|
C12
|
B:CLA602
|
4.3
|
61.1
|
1.0
|
C2B
|
B:CLA602
|
4.3
|
40.6
|
1.0
|
C3C
|
B:CLA602
|
4.4
|
43.9
|
1.0
|
C11
|
B:CLA602
|
4.4
|
63.8
|
1.0
|
CZ
|
B:PHE190
|
4.4
|
50.3
|
1.0
|
C2D
|
B:CLA602
|
4.4
|
52.9
|
1.0
|
C8
|
B:CLA602
|
4.5
|
79.2
|
1.0
|
C3A
|
B:CLA602
|
4.6
|
49.1
|
1.0
|
C2A
|
B:CLA602
|
4.6
|
55.4
|
1.0
|
CBB
|
B:CLA603
|
4.7
|
42.6
|
1.0
|
O
|
B:HOH730
|
4.7
|
46.6
|
1.0
|
|
Magnesium binding site 6 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 6 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg603
b:39.1
occ:1.00
|
MG
|
B:CLA603
|
0.0
|
39.1
|
1.0
|
ND
|
B:CLA603
|
2.0
|
37.4
|
1.0
|
NB
|
B:CLA603
|
2.1
|
42.7
|
1.0
|
NC
|
B:CLA603
|
2.2
|
39.0
|
1.0
|
ND1
|
B:HIS201
|
2.2
|
33.3
|
1.0
|
NA
|
B:CLA603
|
2.2
|
39.3
|
1.0
|
C4D
|
B:CLA603
|
3.0
|
37.9
|
1.0
|
C4B
|
B:CLA603
|
3.0
|
39.1
|
1.0
|
CE1
|
B:HIS201
|
3.1
|
36.9
|
1.0
|
C1B
|
B:CLA603
|
3.1
|
37.2
|
1.0
|
C1D
|
B:CLA603
|
3.1
|
37.6
|
1.0
|
C1C
|
B:CLA603
|
3.2
|
39.3
|
1.0
|
C4A
|
B:CLA603
|
3.2
|
42.4
|
1.0
|
C4C
|
B:CLA603
|
3.2
|
38.9
|
1.0
|
C1A
|
B:CLA603
|
3.2
|
38.9
|
1.0
|
CG
|
B:HIS201
|
3.3
|
32.3
|
1.0
|
CHC
|
B:CLA603
|
3.4
|
38.0
|
1.0
|
CHB
|
B:CLA603
|
3.5
|
33.3
|
1.0
|
CHA
|
B:CLA603
|
3.6
|
33.9
|
1.0
|
CHD
|
B:CLA603
|
3.6
|
39.2
|
1.0
|
CB
|
B:HIS201
|
3.8
|
34.7
|
1.0
|
CZ
|
H:PHE41
|
4.0
|
42.4
|
1.0
|
C3D
|
B:CLA603
|
4.2
|
38.3
|
1.0
|
NE2
|
B:HIS201
|
4.2
|
34.4
|
1.0
|
CA
|
B:HIS201
|
4.3
|
37.6
|
1.0
|
C3B
|
B:CLA603
|
4.3
|
42.2
|
1.0
|
C2D
|
B:CLA603
|
4.4
|
35.6
|
1.0
|
C2B
|
B:CLA603
|
4.4
|
40.9
|
1.0
|
CD2
|
B:HIS201
|
4.4
|
34.5
|
1.0
|
CE2
|
H:PHE41
|
4.4
|
41.3
|
1.0
|
C3A
|
B:CLA603
|
4.5
|
36.0
|
1.0
|
C3C
|
B:CLA603
|
4.5
|
37.7
|
1.0
|
C2C
|
B:CLA603
|
4.5
|
38.9
|
1.0
|
C2A
|
B:CLA603
|
4.5
|
38.5
|
1.0
|
O
|
B:HIS201
|
4.9
|
37.7
|
1.0
|
CMA
|
B:CLA603
|
5.0
|
33.8
|
1.0
|
CBD
|
B:CLA603
|
5.0
|
39.5
|
1.0
|
|
Magnesium binding site 7 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 7 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg604
b:32.3
occ:1.00
|
MG
|
B:CLA604
|
0.0
|
32.3
|
1.0
|
NB
|
B:CLA604
|
1.9
|
32.3
|
1.0
|
ND
|
B:CLA604
|
2.0
|
34.6
|
1.0
|
NC
|
B:CLA604
|
2.1
|
34.3
|
1.0
|
NA
|
B:CLA604
|
2.2
|
29.1
|
1.0
|
NE2
|
B:HIS202
|
2.2
|
37.0
|
1.0
|
C4B
|
B:CLA604
|
2.9
|
29.8
|
1.0
|
C4D
|
B:CLA604
|
3.0
|
32.6
|
1.0
|
C1B
|
B:CLA604
|
3.0
|
29.7
|
1.0
|
C1C
|
B:CLA604
|
3.1
|
33.9
|
1.0
|
C4A
|
B:CLA604
|
3.1
|
31.8
|
1.0
|
C4C
|
B:CLA604
|
3.1
|
34.9
|
1.0
|
CD2
|
B:HIS202
|
3.1
|
36.4
|
1.0
|
C1A
|
B:CLA604
|
3.1
|
29.9
|
1.0
|
C1D
|
B:CLA604
|
3.2
|
35.1
|
1.0
|
CE1
|
B:HIS202
|
3.3
|
43.3
|
1.0
|
CHB
|
B:CLA604
|
3.4
|
31.7
|
1.0
|
CHC
|
B:CLA604
|
3.4
|
30.9
|
1.0
|
CHA
|
B:CLA604
|
3.6
|
31.5
|
1.0
|
CHD
|
B:CLA604
|
3.6
|
34.4
|
1.0
|
C3D
|
B:CLA604
|
4.3
|
35.4
|
1.0
|
C3B
|
B:CLA604
|
4.3
|
26.5
|
1.0
|
CG
|
B:HIS202
|
4.3
|
39.4
|
1.0
|
C2B
|
B:CLA604
|
4.3
|
29.3
|
1.0
|
ND1
|
B:HIS202
|
4.4
|
36.5
|
1.0
|
C2C
|
B:CLA604
|
4.4
|
35.1
|
1.0
|
C3C
|
B:CLA604
|
4.4
|
33.9
|
1.0
|
C3A
|
B:CLA604
|
4.4
|
35.3
|
1.0
|
C2D
|
B:CLA604
|
4.4
|
34.3
|
1.0
|
C2A
|
B:CLA604
|
4.5
|
31.8
|
1.0
|
C6
|
B:CLA606
|
4.5
|
48.3
|
1.0
|
NE2
|
B:HIS201
|
4.6
|
34.4
|
1.0
|
CD2
|
B:HIS201
|
4.7
|
34.5
|
1.0
|
C4
|
B:CLA606
|
4.7
|
52.0
|
1.0
|
C7
|
B:CLA606
|
4.9
|
51.3
|
1.0
|
CBA
|
B:CLA604
|
4.9
|
29.3
|
1.0
|
C5
|
B:CLA606
|
5.0
|
42.8
|
1.0
|
|
Magnesium binding site 8 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 8 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg605
b:32.5
occ:1.00
|
MG
|
B:CLA605
|
0.0
|
32.5
|
1.0
|
NB
|
B:CLA605
|
2.1
|
29.2
|
1.0
|
ND
|
B:CLA605
|
2.1
|
30.0
|
1.0
|
NC
|
B:CLA605
|
2.1
|
28.1
|
1.0
|
NA
|
B:CLA605
|
2.1
|
33.0
|
1.0
|
NE2
|
B:HIS455
|
2.3
|
30.1
|
1.0
|
C4D
|
B:CLA605
|
3.0
|
30.9
|
1.0
|
C4B
|
B:CLA605
|
3.0
|
29.1
|
1.0
|
C1B
|
B:CLA605
|
3.1
|
28.7
|
1.0
|
C4A
|
B:CLA605
|
3.1
|
32.1
|
1.0
|
C1A
|
B:CLA605
|
3.1
|
32.8
|
1.0
|
C4C
|
B:CLA605
|
3.1
|
27.8
|
1.0
|
C1C
|
B:CLA605
|
3.1
|
34.6
|
1.0
|
C1D
|
B:CLA605
|
3.2
|
30.1
|
1.0
|
CD2
|
B:HIS455
|
3.2
|
29.5
|
1.0
|
CE1
|
B:HIS455
|
3.4
|
29.5
|
1.0
|
CHB
|
B:CLA605
|
3.4
|
28.2
|
1.0
|
CHC
|
B:CLA605
|
3.5
|
27.8
|
1.0
|
CHA
|
B:CLA605
|
3.6
|
34.0
|
1.0
|
CHD
|
B:CLA605
|
3.6
|
26.7
|
1.0
|
C14
|
B:CLA613
|
4.1
|
40.1
|
1.0
|
C3D
|
B:CLA605
|
4.2
|
30.6
|
1.0
|
C2B
|
B:CLA605
|
4.3
|
29.0
|
1.0
|
C3B
|
B:CLA605
|
4.4
|
27.0
|
1.0
|
CG
|
B:HIS455
|
4.4
|
28.2
|
1.0
|
C2D
|
B:CLA605
|
4.4
|
30.1
|
1.0
|
C3C
|
B:CLA605
|
4.4
|
31.5
|
1.0
|
ND1
|
B:HIS455
|
4.4
|
34.8
|
1.0
|
C3A
|
B:CLA605
|
4.4
|
29.4
|
1.0
|
C2C
|
B:CLA605
|
4.4
|
31.1
|
1.0
|
C2A
|
B:CLA605
|
4.5
|
29.7
|
1.0
|
C13
|
B:CLA613
|
4.8
|
40.2
|
1.0
|
C15
|
B:CLA613
|
4.9
|
35.6
|
1.0
|
|
Magnesium binding site 9 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 9 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg606
b:33.0
occ:1.00
|
MG
|
B:CLA606
|
0.0
|
33.0
|
1.0
|
ND
|
B:CLA606
|
2.0
|
34.7
|
1.0
|
NC
|
B:CLA606
|
2.0
|
36.9
|
1.0
|
NB
|
B:CLA606
|
2.1
|
32.3
|
1.0
|
NE2
|
B:HIS100
|
2.2
|
32.4
|
1.0
|
NA
|
B:CLA606
|
2.3
|
32.8
|
1.0
|
C4D
|
B:CLA606
|
2.9
|
31.8
|
1.0
|
C1D
|
B:CLA606
|
3.0
|
29.0
|
1.0
|
C4B
|
B:CLA606
|
3.0
|
30.3
|
1.0
|
C4C
|
B:CLA606
|
3.0
|
35.1
|
1.0
|
C1C
|
B:CLA606
|
3.1
|
36.5
|
1.0
|
C1B
|
B:CLA606
|
3.1
|
34.3
|
1.0
|
CD2
|
B:HIS100
|
3.1
|
28.1
|
1.0
|
C4A
|
B:CLA606
|
3.2
|
37.1
|
1.0
|
C1A
|
B:CLA606
|
3.2
|
30.9
|
1.0
|
CE1
|
B:HIS100
|
3.3
|
32.3
|
1.0
|
CHC
|
B:CLA606
|
3.4
|
30.6
|
1.0
|
CHD
|
B:CLA606
|
3.4
|
34.8
|
1.0
|
CHB
|
B:CLA606
|
3.5
|
34.7
|
1.0
|
CHA
|
B:CLA606
|
3.6
|
30.6
|
1.0
|
C1
|
B:CLA605
|
4.2
|
49.7
|
1.0
|
C2
|
B:CLA605
|
4.2
|
55.0
|
1.0
|
C3D
|
B:CLA606
|
4.2
|
29.3
|
1.0
|
C2D
|
B:CLA606
|
4.3
|
32.5
|
1.0
|
CG
|
B:HIS100
|
4.3
|
29.2
|
1.0
|
ND1
|
B:HIS100
|
4.4
|
30.9
|
1.0
|
C3C
|
B:CLA606
|
4.4
|
31.3
|
1.0
|
C3B
|
B:CLA606
|
4.4
|
35.5
|
1.0
|
C2C
|
B:CLA606
|
4.4
|
34.3
|
1.0
|
C2B
|
B:CLA606
|
4.5
|
34.2
|
1.0
|
C3A
|
B:CLA606
|
4.5
|
33.0
|
1.0
|
C2A
|
B:CLA606
|
4.6
|
31.0
|
1.0
|
C4
|
B:CLA607
|
4.9
|
35.2
|
1.0
|
|
Magnesium binding site 10 out
of 74 in 5zzn
Go back to
Magnesium Binding Sites List in 5zzn
Magnesium binding site 10 out
of 74 in the Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Crystal Structure of Photosystem II From An Sqdg-Deficient Mutant of Thermosynechococcus Elongatus within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg607
b:37.9
occ:1.00
|
MG
|
B:CLA607
|
0.0
|
37.9
|
1.0
|
NC
|
B:CLA607
|
2.0
|
39.1
|
1.0
|
ND
|
B:CLA607
|
2.0
|
39.4
|
1.0
|
NB
|
B:CLA607
|
2.1
|
38.5
|
1.0
|
NA
|
B:CLA607
|
2.3
|
37.8
|
1.0
|
ND1
|
B:HIS157
|
2.4
|
42.7
|
1.0
|
C4C
|
B:CLA607
|
3.0
|
37.4
|
1.0
|
C4D
|
B:CLA607
|
3.0
|
40.0
|
1.0
|
C1B
|
B:CLA607
|
3.1
|
35.3
|
1.0
|
C1C
|
B:CLA607
|
3.1
|
39.0
|
1.0
|
C4B
|
B:CLA607
|
3.1
|
37.7
|
1.0
|
C1D
|
B:CLA607
|
3.1
|
44.0
|
1.0
|
C4A
|
B:CLA607
|
3.1
|
36.9
|
1.0
|
CE1
|
B:HIS157
|
3.2
|
44.0
|
1.0
|
C1A
|
B:CLA607
|
3.3
|
40.3
|
1.0
|
CHB
|
B:CLA607
|
3.4
|
39.2
|
1.0
|
CG
|
B:HIS157
|
3.4
|
40.2
|
1.0
|
CHD
|
B:CLA607
|
3.5
|
40.3
|
1.0
|
CHC
|
B:CLA607
|
3.5
|
36.7
|
1.0
|
CHA
|
B:CLA607
|
3.7
|
35.6
|
1.0
|
CB
|
B:HIS157
|
3.8
|
44.7
|
1.0
|
C10
|
B:UNL627
|
4.2
|
53.5
|
1.0
|
C9
|
B:UNL627
|
4.2
|
55.3
|
1.0
|
C3D
|
B:CLA607
|
4.2
|
39.5
|
1.0
|
C3C
|
B:CLA607
|
4.3
|
38.8
|
1.0
|
C2D
|
B:CLA607
|
4.3
|
45.2
|
1.0
|
C2B
|
B:CLA607
|
4.4
|
38.3
|
1.0
|
C2C
|
B:CLA607
|
4.4
|
39.4
|
1.0
|
NE2
|
B:HIS157
|
4.4
|
42.4
|
1.0
|
C11
|
B:UNL627
|
4.4
|
56.0
|
1.0
|
C3B
|
B:CLA607
|
4.4
|
32.1
|
1.0
|
CD2
|
B:HIS157
|
4.5
|
40.9
|
1.0
|
C3A
|
B:CLA607
|
4.5
|
33.0
|
1.0
|
C2A
|
B:CLA607
|
4.6
|
33.1
|
1.0
|
CA
|
B:HIS157
|
5.0
|
38.7
|
1.0
|
CD
|
B:PRO164
|
5.0
|
44.0
|
1.0
|
|
Reference:
Y.Nakajima,
Y.Umena,
R.Nagao,
K.Endo,
K.Kobayashi,
F.Akita,
M.Suga,
H.Wada,
T.Noguchi,
J.R.Shen.
Thylakoid Membrane Lipid Sulfoquinovosyl-Diacylglycerol (Sqdg) Is Required For Full Functioning of Photosystem II Inthermosynechococcus Elongatus. J. Biol. Chem. V. 293 14786 2018.
ISSN: ESSN 1083-351X
PubMed: 30076221
DOI: 10.1074/JBC.RA118.004304
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