Magnesium in PDB 7yq2: Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
Enzymatic activity of Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
All present enzymatic activity of Crystal Structure of Photosystem II Expressing PSBA2 Gene Only:
1.10.3.9;
Protein crystallography data
The structure of Crystal Structure of Photosystem II Expressing PSBA2 Gene Only, PDB code: 7yq2
was solved by
Y.Nakajima,
M.Suga,
J.R.Shen,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
20.00 /
1.90
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
122.135,
228.172,
286.685,
90,
90,
90
|
R / Rfree (%)
|
15.1 /
18.4
|
Other elements in 7yq2:
The structure of Crystal Structure of Photosystem II Expressing PSBA2 Gene Only also contains other interesting chemical elements:
Magnesium Binding Sites:
Magnesium binding site 1 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 1 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg405
b:27.0
occ:1.00
|
MG
|
A:CLA405
|
0.0
|
27.0
|
1.0
|
ND
|
A:CLA405
|
1.9
|
29.5
|
1.0
|
NB
|
A:CLA405
|
2.1
|
26.4
|
1.0
|
NA
|
A:CLA405
|
2.2
|
27.2
|
1.0
|
NC
|
A:CLA405
|
2.2
|
24.7
|
1.0
|
NE2
|
A:HIS198
|
2.3
|
26.0
|
1.0
|
C4D
|
A:CLA405
|
2.9
|
23.3
|
1.0
|
C4B
|
A:CLA405
|
3.1
|
24.0
|
1.0
|
C1B
|
A:CLA405
|
3.1
|
24.6
|
1.0
|
C1D
|
A:CLA405
|
3.1
|
24.0
|
1.0
|
C1A
|
A:CLA405
|
3.1
|
24.5
|
1.0
|
C4A
|
A:CLA405
|
3.1
|
26.2
|
1.0
|
C1C
|
A:CLA405
|
3.2
|
24.2
|
1.0
|
CE1
|
A:HIS198
|
3.2
|
25.0
|
1.0
|
C4C
|
A:CLA405
|
3.2
|
24.0
|
1.0
|
CD2
|
A:HIS198
|
3.3
|
28.1
|
1.0
|
CHA
|
A:CLA405
|
3.4
|
22.4
|
1.0
|
CHB
|
A:CLA405
|
3.5
|
23.6
|
1.0
|
CHC
|
A:CLA405
|
3.5
|
23.3
|
1.0
|
CHD
|
A:CLA405
|
3.6
|
24.0
|
1.0
|
CE
|
A:MET183
|
4.0
|
23.8
|
1.0
|
C3D
|
A:CLA405
|
4.1
|
23.7
|
1.0
|
ND1
|
A:HIS198
|
4.3
|
26.4
|
1.0
|
C2D
|
A:CLA405
|
4.3
|
28.4
|
1.0
|
C3B
|
A:CLA405
|
4.4
|
22.9
|
1.0
|
CAB
|
D:CLA401
|
4.4
|
26.1
|
1.0
|
C2B
|
A:CLA405
|
4.4
|
27.6
|
1.0
|
CG
|
A:HIS198
|
4.4
|
24.6
|
1.0
|
C3A
|
A:CLA405
|
4.5
|
25.4
|
1.0
|
C2A
|
A:CLA405
|
4.5
|
23.5
|
1.0
|
C2C
|
A:CLA405
|
4.5
|
23.5
|
1.0
|
C3C
|
A:CLA405
|
4.5
|
23.4
|
1.0
|
CBD
|
A:CLA405
|
4.9
|
29.8
|
1.0
|
|
Magnesium binding site 2 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 2 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg406
b:28.3
occ:1.00
|
MG
|
A:CLA406
|
0.0
|
28.3
|
1.0
|
ND
|
A:CLA406
|
1.9
|
30.1
|
1.0
|
O
|
A:HOH574
|
2.1
|
23.3
|
1.0
|
NB
|
A:CLA406
|
2.1
|
30.5
|
1.0
|
NC
|
A:CLA406
|
2.1
|
24.8
|
1.0
|
NA
|
A:CLA406
|
2.2
|
25.3
|
1.0
|
C4D
|
A:CLA406
|
2.9
|
27.6
|
1.0
|
C4B
|
A:CLA406
|
3.1
|
30.2
|
1.0
|
C1C
|
A:CLA406
|
3.1
|
25.9
|
1.0
|
C1B
|
A:CLA406
|
3.1
|
26.9
|
1.0
|
C1D
|
A:CLA406
|
3.1
|
26.1
|
1.0
|
C4A
|
A:CLA406
|
3.1
|
23.2
|
1.0
|
C1A
|
A:CLA406
|
3.1
|
22.3
|
1.0
|
C4C
|
A:CLA406
|
3.1
|
25.9
|
1.0
|
CHB
|
A:CLA406
|
3.4
|
25.0
|
1.0
|
CHA
|
A:CLA406
|
3.5
|
24.8
|
1.0
|
CHC
|
A:CLA406
|
3.5
|
25.9
|
1.0
|
CHD
|
A:CLA406
|
3.6
|
24.1
|
1.0
|
O
|
A:HOH626
|
4.1
|
25.0
|
1.0
|
CBB
|
A:PHO408
|
4.1
|
28.6
|
1.0
|
C3D
|
A:CLA406
|
4.1
|
20.6
|
1.0
|
C2D
|
A:CLA406
|
4.4
|
25.3
|
1.0
|
C3B
|
A:CLA406
|
4.4
|
24.0
|
1.0
|
CG2
|
A:THR179
|
4.4
|
26.9
|
1.0
|
C2B
|
A:CLA406
|
4.4
|
26.2
|
1.0
|
C2C
|
A:CLA406
|
4.4
|
28.5
|
1.0
|
C3C
|
A:CLA406
|
4.4
|
28.8
|
1.0
|
C3A
|
A:CLA406
|
4.5
|
24.9
|
1.0
|
C2A
|
A:CLA406
|
4.5
|
22.4
|
1.0
|
OG1
|
A:THR179
|
4.5
|
23.7
|
1.0
|
C19
|
A:PHO408
|
4.6
|
26.6
|
1.0
|
CBA
|
A:CLA406
|
4.8
|
26.1
|
1.0
|
CBD
|
A:CLA406
|
4.9
|
27.6
|
1.0
|
CB
|
A:THR179
|
4.9
|
21.5
|
1.0
|
|
Magnesium binding site 3 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 3 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg407
b:28.7
occ:1.00
|
MG
|
A:CLA407
|
0.0
|
28.7
|
1.0
|
ND
|
A:CLA407
|
2.0
|
30.1
|
1.0
|
NB
|
A:CLA407
|
2.0
|
27.4
|
1.0
|
NA
|
A:CLA407
|
2.2
|
29.7
|
1.0
|
NC
|
A:CLA407
|
2.2
|
26.6
|
1.0
|
O
|
A:HOH636
|
2.2
|
26.1
|
1.0
|
C4D
|
A:CLA407
|
2.9
|
25.7
|
1.0
|
C4B
|
A:CLA407
|
3.0
|
28.4
|
1.0
|
C1B
|
A:CLA407
|
3.0
|
25.6
|
1.0
|
C4A
|
A:CLA407
|
3.1
|
27.2
|
1.0
|
C1C
|
A:CLA407
|
3.1
|
23.8
|
1.0
|
C1A
|
A:CLA407
|
3.1
|
26.9
|
1.0
|
C1D
|
A:CLA407
|
3.2
|
24.5
|
1.0
|
C4C
|
A:CLA407
|
3.2
|
24.8
|
1.0
|
CHB
|
A:CLA407
|
3.4
|
30.1
|
1.0
|
CHA
|
A:CLA407
|
3.4
|
24.3
|
1.0
|
CHC
|
A:CLA407
|
3.4
|
21.8
|
1.0
|
CHD
|
A:CLA407
|
3.7
|
26.0
|
1.0
|
CBB
|
A:PHO409
|
4.0
|
29.0
|
1.0
|
O
|
A:HOH618
|
4.1
|
26.0
|
1.0
|
C3D
|
A:CLA407
|
4.2
|
23.6
|
1.0
|
C3B
|
A:CLA407
|
4.3
|
27.6
|
1.0
|
C2B
|
A:CLA407
|
4.4
|
25.7
|
1.0
|
C2D
|
A:CLA407
|
4.4
|
26.5
|
1.0
|
C2C
|
A:CLA407
|
4.4
|
23.7
|
1.0
|
C3A
|
A:CLA407
|
4.5
|
30.4
|
1.0
|
C2A
|
A:CLA407
|
4.5
|
29.4
|
1.0
|
C3C
|
A:CLA407
|
4.5
|
24.2
|
1.0
|
CG2
|
D:ILE178
|
4.6
|
25.9
|
1.0
|
CE2
|
A:PHE206
|
4.8
|
28.8
|
1.0
|
C20
|
A:PHO409
|
4.8
|
28.8
|
1.0
|
CBD
|
A:CLA407
|
4.9
|
27.6
|
1.0
|
CBA
|
A:CLA407
|
4.9
|
27.9
|
1.0
|
CG1
|
D:ILE178
|
5.0
|
27.5
|
1.0
|
|
Magnesium binding site 4 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 4 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg410
b:34.2
occ:1.00
|
MG
|
A:CLA410
|
0.0
|
34.2
|
1.0
|
ND
|
A:CLA410
|
2.0
|
36.6
|
1.0
|
NB
|
A:CLA410
|
2.0
|
37.5
|
1.0
|
NC
|
A:CLA410
|
2.1
|
35.8
|
1.0
|
NA
|
A:CLA410
|
2.2
|
36.8
|
1.0
|
NE2
|
A:HIS118
|
2.2
|
29.2
|
1.0
|
C4D
|
A:CLA410
|
3.0
|
33.3
|
1.0
|
C4B
|
A:CLA410
|
3.0
|
35.8
|
1.0
|
C1B
|
A:CLA410
|
3.1
|
32.8
|
1.0
|
C1C
|
A:CLA410
|
3.1
|
35.4
|
1.0
|
C4A
|
A:CLA410
|
3.1
|
34.9
|
1.0
|
CE1
|
A:HIS118
|
3.1
|
32.5
|
1.0
|
C1A
|
A:CLA410
|
3.1
|
34.7
|
1.0
|
C4C
|
A:CLA410
|
3.2
|
32.3
|
1.0
|
C1D
|
A:CLA410
|
3.2
|
31.4
|
1.0
|
CD2
|
A:HIS118
|
3.2
|
32.9
|
1.0
|
CHC
|
A:CLA410
|
3.4
|
36.7
|
1.0
|
CHB
|
A:CLA410
|
3.4
|
26.9
|
1.0
|
CHA
|
A:CLA410
|
3.5
|
28.6
|
1.0
|
CHD
|
A:CLA410
|
3.7
|
31.8
|
1.0
|
CG1
|
I:VAL8
|
4.2
|
36.7
|
1.0
|
C3D
|
A:CLA410
|
4.2
|
29.4
|
1.0
|
ND1
|
A:HIS118
|
4.3
|
29.0
|
1.0
|
C3B
|
A:CLA410
|
4.3
|
35.2
|
1.0
|
CG
|
A:HIS118
|
4.4
|
32.4
|
1.0
|
C2B
|
A:CLA410
|
4.4
|
31.7
|
1.0
|
CG2
|
I:VAL12
|
4.4
|
41.2
|
1.0
|
C2C
|
A:CLA410
|
4.4
|
36.0
|
1.0
|
C2D
|
A:CLA410
|
4.4
|
32.3
|
1.0
|
C3C
|
A:CLA410
|
4.5
|
30.8
|
1.0
|
C3A
|
A:CLA410
|
4.5
|
37.6
|
1.0
|
C2A
|
A:CLA410
|
4.5
|
32.5
|
1.0
|
CBD
|
A:CLA410
|
4.9
|
34.1
|
1.0
|
CMA
|
A:CLA410
|
5.0
|
31.6
|
1.0
|
|
Magnesium binding site 5 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 5 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg602
b:43.2
occ:1.00
|
MG
|
B:CLA602
|
0.0
|
43.2
|
1.0
|
ND
|
B:CLA602
|
2.0
|
46.9
|
1.0
|
O
|
B:HOH853
|
2.1
|
44.2
|
1.0
|
NB
|
B:CLA602
|
2.1
|
45.9
|
1.0
|
NC
|
B:CLA602
|
2.2
|
40.4
|
1.0
|
NA
|
B:CLA602
|
2.2
|
49.0
|
1.0
|
C4D
|
B:CLA602
|
3.0
|
48.7
|
1.0
|
C4B
|
B:CLA602
|
3.1
|
44.3
|
1.0
|
C1C
|
B:CLA602
|
3.1
|
44.5
|
1.0
|
C1B
|
B:CLA602
|
3.1
|
43.4
|
1.0
|
C4A
|
B:CLA602
|
3.2
|
51.3
|
1.0
|
C1A
|
B:CLA602
|
3.2
|
52.4
|
1.0
|
C4C
|
B:CLA602
|
3.2
|
44.6
|
1.0
|
C1D
|
B:CLA602
|
3.2
|
46.8
|
1.0
|
CHC
|
B:CLA602
|
3.4
|
44.8
|
1.0
|
CHB
|
B:CLA602
|
3.5
|
44.6
|
1.0
|
CHA
|
B:CLA602
|
3.5
|
48.0
|
1.0
|
CHD
|
B:CLA602
|
3.7
|
46.7
|
1.0
|
C29
|
H:UNL105
|
3.9
|
58.2
|
1.0
|
C31
|
H:UNL105
|
4.1
|
55.9
|
1.0
|
C3D
|
B:CLA602
|
4.2
|
50.4
|
1.0
|
CE2
|
B:PHE190
|
4.3
|
44.2
|
1.0
|
C30
|
H:UNL105
|
4.3
|
51.7
|
1.0
|
O
|
B:TRP185
|
4.3
|
45.8
|
1.0
|
C3B
|
B:CLA602
|
4.4
|
44.1
|
1.0
|
C2B
|
B:CLA602
|
4.4
|
45.4
|
1.0
|
C2C
|
B:CLA602
|
4.4
|
43.4
|
1.0
|
C2D
|
B:CLA602
|
4.5
|
50.0
|
1.0
|
CZ
|
B:PHE190
|
4.5
|
40.9
|
1.0
|
C3C
|
B:CLA602
|
4.5
|
48.3
|
1.0
|
C32
|
H:UNL105
|
4.5
|
55.0
|
1.0
|
C3A
|
B:CLA602
|
4.5
|
49.2
|
1.0
|
C2A
|
B:CLA602
|
4.5
|
53.7
|
1.0
|
CBB
|
B:CLA603
|
4.6
|
42.0
|
1.0
|
O
|
B:HOH753
|
4.8
|
43.4
|
1.0
|
CBD
|
B:CLA602
|
4.9
|
54.7
|
1.0
|
CBA
|
B:CLA602
|
5.0
|
76.5
|
1.0
|
|
Magnesium binding site 6 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 6 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg603
b:37.4
occ:1.00
|
MG
|
B:CLA603
|
0.0
|
37.4
|
1.0
|
ND
|
B:CLA603
|
1.9
|
32.3
|
1.0
|
NB
|
B:CLA603
|
2.1
|
41.5
|
1.0
|
NC
|
B:CLA603
|
2.1
|
37.1
|
1.0
|
NA
|
B:CLA603
|
2.2
|
35.4
|
1.0
|
ND1
|
B:HIS201
|
2.3
|
36.5
|
1.0
|
C4D
|
B:CLA603
|
2.9
|
30.5
|
1.0
|
CE1
|
B:HIS201
|
3.1
|
38.9
|
1.0
|
C4B
|
B:CLA603
|
3.1
|
38.7
|
1.0
|
C1C
|
B:CLA603
|
3.1
|
36.4
|
1.0
|
C1B
|
B:CLA603
|
3.1
|
38.1
|
1.0
|
C4A
|
B:CLA603
|
3.1
|
34.7
|
1.0
|
C1A
|
B:CLA603
|
3.1
|
30.6
|
1.0
|
C1D
|
B:CLA603
|
3.2
|
31.8
|
1.0
|
C4C
|
B:CLA603
|
3.2
|
37.6
|
1.0
|
CG
|
B:HIS201
|
3.4
|
36.5
|
1.0
|
CHC
|
B:CLA603
|
3.5
|
34.0
|
1.0
|
CHB
|
B:CLA603
|
3.5
|
34.8
|
1.0
|
CHA
|
B:CLA603
|
3.5
|
29.3
|
1.0
|
CHD
|
B:CLA603
|
3.6
|
34.3
|
1.0
|
CB
|
B:HIS201
|
3.8
|
39.0
|
1.0
|
CZ
|
H:PHE41
|
3.8
|
41.6
|
1.0
|
C3D
|
B:CLA603
|
4.2
|
31.9
|
1.0
|
NE2
|
B:HIS201
|
4.3
|
35.9
|
1.0
|
CE2
|
H:PHE41
|
4.3
|
38.8
|
1.0
|
C3B
|
B:CLA603
|
4.4
|
42.5
|
1.0
|
C2D
|
B:CLA603
|
4.4
|
34.0
|
1.0
|
C2B
|
B:CLA603
|
4.4
|
38.2
|
1.0
|
CD2
|
B:HIS201
|
4.4
|
37.2
|
1.0
|
C2C
|
B:CLA603
|
4.4
|
35.5
|
1.0
|
CA
|
B:HIS201
|
4.5
|
42.5
|
1.0
|
C3A
|
B:CLA603
|
4.5
|
35.1
|
1.0
|
C3C
|
B:CLA603
|
4.5
|
35.0
|
1.0
|
C2A
|
B:CLA603
|
4.5
|
30.3
|
1.0
|
CE1
|
H:PHE41
|
4.9
|
42.2
|
1.0
|
CBD
|
B:CLA603
|
4.9
|
34.5
|
1.0
|
CMA
|
B:CLA603
|
5.0
|
28.8
|
1.0
|
|
Magnesium binding site 7 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 7 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg604
b:31.5
occ:1.00
|
MG
|
B:CLA604
|
0.0
|
31.5
|
1.0
|
ND
|
B:CLA604
|
1.9
|
33.4
|
1.0
|
NB
|
B:CLA604
|
2.0
|
31.4
|
1.0
|
NA
|
B:CLA604
|
2.2
|
33.4
|
1.0
|
NE2
|
B:HIS202
|
2.2
|
32.8
|
1.0
|
NC
|
B:CLA604
|
2.2
|
34.0
|
1.0
|
C4D
|
B:CLA604
|
2.9
|
31.1
|
1.0
|
C1B
|
B:CLA604
|
3.0
|
32.6
|
1.0
|
C4B
|
B:CLA604
|
3.0
|
33.7
|
1.0
|
C4A
|
B:CLA604
|
3.1
|
33.6
|
1.0
|
C1A
|
B:CLA604
|
3.1
|
28.6
|
1.0
|
C1C
|
B:CLA604
|
3.1
|
33.2
|
1.0
|
CD2
|
B:HIS202
|
3.1
|
34.6
|
1.0
|
CE1
|
B:HIS202
|
3.2
|
37.0
|
1.0
|
C1D
|
B:CLA604
|
3.2
|
33.8
|
1.0
|
C4C
|
B:CLA604
|
3.2
|
33.7
|
1.0
|
CHB
|
B:CLA604
|
3.4
|
31.3
|
1.0
|
CHC
|
B:CLA604
|
3.5
|
30.2
|
1.0
|
CHA
|
B:CLA604
|
3.5
|
29.0
|
1.0
|
CHD
|
B:CLA604
|
3.7
|
29.9
|
1.0
|
C3D
|
B:CLA604
|
4.2
|
32.7
|
1.0
|
ND1
|
B:HIS202
|
4.3
|
30.9
|
1.0
|
CG
|
B:HIS202
|
4.3
|
34.0
|
1.0
|
C3B
|
B:CLA604
|
4.3
|
32.4
|
1.0
|
C2B
|
B:CLA604
|
4.4
|
30.6
|
1.0
|
C2D
|
B:CLA604
|
4.4
|
33.7
|
1.0
|
C2A
|
B:CLA604
|
4.4
|
30.6
|
1.0
|
C3A
|
B:CLA604
|
4.4
|
30.4
|
1.0
|
C2C
|
B:CLA604
|
4.5
|
30.6
|
1.0
|
C3C
|
B:CLA604
|
4.5
|
35.0
|
1.0
|
C6
|
B:CLA606
|
4.6
|
41.6
|
1.0
|
NE2
|
B:HIS201
|
4.7
|
35.9
|
1.0
|
C4
|
B:CLA606
|
4.7
|
37.1
|
1.0
|
C5
|
B:CLA606
|
4.7
|
32.4
|
1.0
|
CD2
|
B:HIS201
|
4.8
|
37.2
|
1.0
|
C7
|
B:CLA606
|
4.8
|
42.4
|
1.0
|
CBD
|
B:CLA604
|
4.9
|
34.4
|
1.0
|
CBA
|
B:CLA604
|
4.9
|
31.3
|
1.0
|
C3
|
B:CLA606
|
5.0
|
38.4
|
1.0
|
|
Magnesium binding site 8 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 8 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg605
b:29.4
occ:1.00
|
MG
|
B:CLA605
|
0.0
|
29.4
|
1.0
|
ND
|
B:CLA605
|
1.9
|
26.1
|
1.0
|
NB
|
B:CLA605
|
2.0
|
28.1
|
1.0
|
NA
|
B:CLA605
|
2.2
|
30.6
|
1.0
|
NC
|
B:CLA605
|
2.2
|
27.8
|
1.0
|
NE2
|
B:HIS455
|
2.2
|
29.8
|
1.0
|
C4D
|
B:CLA605
|
2.9
|
26.4
|
1.0
|
C1B
|
B:CLA605
|
3.0
|
26.6
|
1.0
|
C4B
|
B:CLA605
|
3.0
|
26.7
|
1.0
|
CD2
|
B:HIS455
|
3.1
|
29.5
|
1.0
|
C4A
|
B:CLA605
|
3.1
|
28.2
|
1.0
|
C1C
|
B:CLA605
|
3.2
|
24.6
|
1.0
|
C1D
|
B:CLA605
|
3.2
|
25.7
|
1.0
|
C1A
|
B:CLA605
|
3.2
|
25.5
|
1.0
|
C4C
|
B:CLA605
|
3.2
|
24.3
|
1.0
|
CE1
|
B:HIS455
|
3.3
|
29.2
|
1.0
|
CHB
|
B:CLA605
|
3.4
|
23.9
|
1.0
|
CHC
|
B:CLA605
|
3.5
|
23.3
|
1.0
|
CHA
|
B:CLA605
|
3.5
|
25.9
|
1.0
|
CHD
|
B:CLA605
|
3.6
|
25.2
|
1.0
|
C3D
|
B:CLA605
|
4.2
|
25.3
|
1.0
|
CG
|
B:HIS455
|
4.3
|
30.1
|
1.0
|
ND1
|
B:HIS455
|
4.3
|
30.5
|
1.0
|
C14
|
B:CLA613
|
4.3
|
36.8
|
1.0
|
C3B
|
B:CLA605
|
4.3
|
23.9
|
1.0
|
C2B
|
B:CLA605
|
4.3
|
26.1
|
1.0
|
C2D
|
B:CLA605
|
4.4
|
29.0
|
1.0
|
C3A
|
B:CLA605
|
4.5
|
30.1
|
1.0
|
C2C
|
B:CLA605
|
4.5
|
24.8
|
1.0
|
C3C
|
B:CLA605
|
4.5
|
26.9
|
1.0
|
C2A
|
B:CLA605
|
4.5
|
25.4
|
1.0
|
C13
|
B:CLA613
|
4.8
|
34.8
|
1.0
|
C15
|
B:CLA613
|
4.9
|
36.5
|
1.0
|
CE2
|
B:PHE451
|
5.0
|
29.4
|
1.0
|
CBD
|
B:CLA605
|
5.0
|
29.1
|
1.0
|
|
Magnesium binding site 9 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 9 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg606
b:32.1
occ:1.00
|
MG
|
B:CLA606
|
0.0
|
32.1
|
1.0
|
ND
|
B:CLA606
|
2.0
|
27.9
|
1.0
|
NB
|
B:CLA606
|
2.1
|
29.7
|
1.0
|
NC
|
B:CLA606
|
2.2
|
30.3
|
1.0
|
NE2
|
B:HIS100
|
2.2
|
29.1
|
1.0
|
NA
|
B:CLA606
|
2.2
|
31.8
|
1.0
|
C4D
|
B:CLA606
|
2.9
|
30.1
|
1.0
|
C4B
|
B:CLA606
|
3.0
|
28.4
|
1.0
|
C1B
|
B:CLA606
|
3.1
|
27.6
|
1.0
|
C1C
|
B:CLA606
|
3.1
|
28.9
|
1.0
|
C1A
|
B:CLA606
|
3.1
|
27.8
|
1.0
|
C4A
|
B:CLA606
|
3.1
|
28.8
|
1.0
|
CE1
|
B:HIS100
|
3.2
|
26.4
|
1.0
|
CD2
|
B:HIS100
|
3.2
|
25.4
|
1.0
|
C1D
|
B:CLA606
|
3.2
|
32.5
|
1.0
|
C4C
|
B:CLA606
|
3.2
|
31.3
|
1.0
|
CHC
|
B:CLA606
|
3.4
|
26.9
|
1.0
|
CHB
|
B:CLA606
|
3.4
|
27.5
|
1.0
|
CHA
|
B:CLA606
|
3.5
|
25.1
|
1.0
|
CHD
|
B:CLA606
|
3.7
|
29.2
|
1.0
|
C2
|
B:CLA605
|
4.2
|
41.2
|
1.0
|
C1
|
B:CLA605
|
4.2
|
37.4
|
1.0
|
C3D
|
B:CLA606
|
4.2
|
28.2
|
1.0
|
ND1
|
B:HIS100
|
4.3
|
26.8
|
1.0
|
CG
|
B:HIS100
|
4.3
|
26.6
|
1.0
|
C3B
|
B:CLA606
|
4.3
|
29.9
|
1.0
|
C2B
|
B:CLA606
|
4.4
|
27.8
|
1.0
|
C2D
|
B:CLA606
|
4.4
|
28.2
|
1.0
|
C2C
|
B:CLA606
|
4.5
|
30.0
|
1.0
|
C2A
|
B:CLA606
|
4.5
|
29.5
|
1.0
|
C3A
|
B:CLA606
|
4.5
|
30.4
|
1.0
|
C3C
|
B:CLA606
|
4.5
|
29.7
|
1.0
|
CBD
|
B:CLA606
|
4.9
|
27.9
|
1.0
|
|
Magnesium binding site 10 out
of 72 in 7yq2
Go back to
Magnesium Binding Sites List in 7yq2
Magnesium binding site 10 out
of 72 in the Crystal Structure of Photosystem II Expressing PSBA2 Gene Only
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 Expressing PSBA2 Gene Only within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg607
b:34.5
occ:1.00
|
MG
|
B:CLA607
|
0.0
|
34.5
|
1.0
|
ND
|
B:CLA607
|
2.0
|
41.3
|
1.0
|
NB
|
B:CLA607
|
2.0
|
35.4
|
1.0
|
NC
|
B:CLA607
|
2.2
|
35.8
|
1.0
|
ND1
|
B:HIS157
|
2.3
|
36.0
|
1.0
|
NA
|
B:CLA607
|
2.3
|
33.4
|
1.0
|
C4D
|
B:CLA607
|
3.0
|
34.8
|
1.0
|
C1B
|
B:CLA607
|
3.0
|
29.6
|
1.0
|
C4B
|
B:CLA607
|
3.0
|
31.5
|
1.0
|
CE1
|
B:HIS157
|
3.0
|
33.5
|
1.0
|
C1C
|
B:CLA607
|
3.1
|
35.7
|
1.0
|
C4A
|
B:CLA607
|
3.2
|
32.1
|
1.0
|
C4C
|
B:CLA607
|
3.2
|
36.2
|
1.0
|
C1D
|
B:CLA607
|
3.2
|
37.1
|
1.0
|
C1A
|
B:CLA607
|
3.2
|
35.0
|
1.0
|
CG
|
B:HIS157
|
3.4
|
37.1
|
1.0
|
CHB
|
B:CLA607
|
3.4
|
29.6
|
1.0
|
CHC
|
B:CLA607
|
3.5
|
30.1
|
1.0
|
CHA
|
B:CLA607
|
3.6
|
31.9
|
1.0
|
CHD
|
B:CLA607
|
3.7
|
36.3
|
1.0
|
CB
|
B:HIS157
|
3.9
|
38.6
|
1.0
|
C4
|
B:LMT626
|
4.0
|
47.7
|
1.0
|
NE2
|
B:HIS157
|
4.2
|
38.0
|
1.0
|
C3D
|
B:CLA607
|
4.2
|
42.1
|
1.0
|
C3
|
B:LMT626
|
4.3
|
54.5
|
1.0
|
C3B
|
B:CLA607
|
4.3
|
30.7
|
1.0
|
C2B
|
B:CLA607
|
4.3
|
30.6
|
1.0
|
CD2
|
B:HIS157
|
4.4
|
34.1
|
1.0
|
C5
|
B:LMT626
|
4.5
|
51.0
|
1.0
|
C2D
|
B:CLA607
|
4.5
|
37.7
|
1.0
|
C2C
|
B:CLA607
|
4.5
|
37.0
|
1.0
|
C2
|
B:LMT626
|
4.5
|
65.1
|
1.0
|
C3C
|
B:CLA607
|
4.5
|
34.8
|
1.0
|
C3A
|
B:CLA607
|
4.6
|
30.2
|
1.0
|
C2A
|
B:CLA607
|
4.6
|
31.5
|
1.0
|
CD
|
B:PRO164
|
4.9
|
34.3
|
1.0
|
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Reference:
Y.Nakajima,
N.Ugai-Amo,
N.Tone,
A.Nakagawa,
M.Iwai,
M.Ikeuchi,
M.Sugiura,
M.Suga,
J.R.Shen.
Crystal Structures of Photosystem II From A Cyanobacterium Expressing Psba 2 in Comparison to Psba 3 Reveal Differences in the D1 Subunit. J.Biol.Chem. V. 298 02668 2022.
ISSN: ESSN 1083-351X
PubMed: 36334624
DOI: 10.1016/J.JBC.2022.102668
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