Magnesium in PDB 8f4e: Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Enzymatic activity of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
All present enzymatic activity of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution:
1.10.3.9;
Protein crystallography data
The structure of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution, PDB code: 8f4e
was solved by
A.Bhowmick,
R.Hussein,
I.Bogacz,
P.S.Simon,
M.Ibrahim,
R.Chatterjee,
M.D.Doyle,
M.H.Cheah,
T.Fransson,
P.Chernev,
I.-S.Kim,
H.Makita,
M.Dasgupta,
C.J.Kaminsky,
M.Zhang,
J.Gatcke,
S.Haupt,
I.I.Nangca,
S.M.Keable,
O.Aydin,
K.Tono,
S.Owada,
L.B.Gee,
F.D.Fuller,
A.Batyuk,
R.Alonso-Mori,
J.M.Holton,
D.W.Paley,
N.W.Moriarty,
F.Mamedov,
P.D.Adams,
A.S.Brewster,
H.Dobbek,
N.K.Sauter,
U.Bergmann,
A.Zouni,
J.Messinger,
J.Kern,
J.Yano,
V.K.Yachandra,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
33.58 /
2.09
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
117.052,
221.917,
308.048,
90,
90,
90
|
R / Rfree (%)
|
18.2 /
23.3
|
Other elements in 8f4e:
The structure of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution also contains other interesting chemical elements:
Magnesium Binding Sites:
Magnesium binding site 1 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 1 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg606
b:26.2
occ:1.00
|
MG
|
A:CLA606
|
0.0
|
26.2
|
1.0
|
ND
|
A:CLA606
|
2.0
|
26.9
|
1.0
|
NB
|
A:CLA606
|
2.1
|
24.7
|
1.0
|
NC
|
A:CLA606
|
2.1
|
23.1
|
1.0
|
NA
|
A:CLA606
|
2.1
|
24.3
|
1.0
|
NE2
|
A:HIS198
|
2.2
|
30.8
|
1.0
|
C4D
|
A:CLA606
|
2.9
|
25.8
|
1.0
|
C1B
|
A:CLA606
|
3.1
|
26.4
|
1.0
|
C4A
|
A:CLA606
|
3.1
|
28.4
|
1.0
|
C4B
|
A:CLA606
|
3.1
|
24.8
|
1.0
|
C1C
|
A:CLA606
|
3.1
|
27.5
|
1.0
|
C1D
|
A:CLA606
|
3.1
|
28.0
|
1.0
|
C4C
|
A:CLA606
|
3.1
|
29.7
|
1.0
|
CE1
|
A:HIS198
|
3.1
|
24.9
|
1.0
|
C1A
|
A:CLA606
|
3.2
|
24.4
|
1.0
|
CD2
|
A:HIS198
|
3.3
|
28.7
|
1.0
|
CHB
|
A:CLA606
|
3.4
|
24.9
|
1.0
|
CHC
|
A:CLA606
|
3.5
|
25.9
|
1.0
|
CHA
|
A:CLA606
|
3.5
|
27.6
|
1.0
|
CHD
|
A:CLA606
|
3.5
|
27.1
|
1.0
|
CE
|
A:MET183
|
4.1
|
22.2
|
0.2
|
CE
|
A:MET183
|
4.1
|
29.3
|
0.1
|
CE
|
A:MET183
|
4.1
|
28.1
|
0.7
|
C3D
|
A:CLA606
|
4.2
|
22.6
|
1.0
|
ND1
|
A:HIS198
|
4.3
|
33.2
|
1.0
|
C2D
|
A:CLA606
|
4.3
|
29.3
|
1.0
|
C2B
|
A:CLA606
|
4.4
|
25.1
|
1.0
|
C2C
|
A:CLA606
|
4.4
|
28.4
|
1.0
|
C3B
|
A:CLA606
|
4.4
|
27.6
|
1.0
|
CG
|
A:HIS198
|
4.4
|
32.0
|
1.0
|
C3C
|
A:CLA606
|
4.4
|
23.9
|
1.0
|
C3A
|
A:CLA606
|
4.4
|
26.0
|
1.0
|
CAB
|
D:CLA402
|
4.5
|
25.5
|
1.0
|
C2A
|
A:CLA606
|
4.5
|
25.8
|
1.0
|
CBD
|
A:CLA606
|
5.0
|
26.9
|
1.0
|
|
Magnesium binding site 2 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 2 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg607
b:28.4
occ:1.00
|
MG
|
A:CLA607
|
0.0
|
28.4
|
1.0
|
NB
|
A:CLA607
|
2.0
|
33.7
|
1.0
|
NC
|
A:CLA607
|
2.1
|
30.4
|
1.0
|
NA
|
A:CLA607
|
2.1
|
31.8
|
1.0
|
ND
|
A:CLA607
|
2.1
|
27.4
|
1.0
|
O
|
A:HOH808
|
2.2
|
28.3
|
1.0
|
C4D
|
A:CLA607
|
3.0
|
30.4
|
1.0
|
C1B
|
A:CLA607
|
3.0
|
28.7
|
1.0
|
C4A
|
A:CLA607
|
3.0
|
34.1
|
1.0
|
C1C
|
A:CLA607
|
3.1
|
32.6
|
1.0
|
C4B
|
A:CLA607
|
3.1
|
33.2
|
1.0
|
C4C
|
A:CLA607
|
3.1
|
30.7
|
1.0
|
C1A
|
A:CLA607
|
3.2
|
30.6
|
1.0
|
C1D
|
A:CLA607
|
3.2
|
27.5
|
1.0
|
CHB
|
A:CLA607
|
3.4
|
30.8
|
1.0
|
CHC
|
A:CLA607
|
3.5
|
30.9
|
1.0
|
CHA
|
A:CLA607
|
3.5
|
28.3
|
1.0
|
CHD
|
A:CLA607
|
3.5
|
25.9
|
1.0
|
CBB
|
A:PHO609
|
3.9
|
32.0
|
1.0
|
C3D
|
A:CLA607
|
4.3
|
31.8
|
1.0
|
C2B
|
A:CLA607
|
4.3
|
32.9
|
1.0
|
C3B
|
A:CLA607
|
4.3
|
33.0
|
1.0
|
C2C
|
A:CLA607
|
4.3
|
31.2
|
1.0
|
C3C
|
A:CLA607
|
4.4
|
29.0
|
1.0
|
O
|
D:HOH585
|
4.4
|
30.4
|
1.0
|
C3A
|
A:CLA607
|
4.4
|
30.9
|
1.0
|
C2D
|
A:CLA607
|
4.4
|
30.4
|
1.0
|
C2A
|
A:CLA607
|
4.4
|
30.6
|
1.0
|
CBA
|
A:CLA607
|
4.7
|
31.4
|
1.0
|
CG2
|
D:ILE178
|
4.8
|
32.0
|
1.0
|
CE2
|
A:PHE206
|
4.9
|
27.9
|
1.0
|
CBD
|
A:CLA607
|
4.9
|
31.1
|
1.0
|
|
Magnesium binding site 3 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 3 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg610
b:25.1
occ:1.00
|
MG
|
A:CLA610
|
0.0
|
25.1
|
1.0
|
ND
|
A:CLA610
|
2.0
|
27.2
|
1.0
|
NB
|
A:CLA610
|
2.0
|
25.6
|
1.0
|
NA
|
A:CLA610
|
2.0
|
27.3
|
1.0
|
NC
|
A:CLA610
|
2.1
|
25.7
|
1.0
|
NE2
|
A:HIS118
|
2.3
|
29.5
|
1.0
|
C4D
|
A:CLA610
|
2.9
|
26.2
|
1.0
|
C4A
|
A:CLA610
|
3.0
|
31.4
|
1.0
|
C1B
|
A:CLA610
|
3.0
|
28.1
|
1.0
|
C1C
|
A:CLA610
|
3.1
|
28.2
|
1.0
|
C4B
|
A:CLA610
|
3.1
|
26.9
|
1.0
|
C4C
|
A:CLA610
|
3.1
|
30.4
|
1.0
|
C1A
|
A:CLA610
|
3.1
|
29.5
|
1.0
|
C1D
|
A:CLA610
|
3.1
|
28.4
|
1.0
|
CE1
|
A:HIS118
|
3.1
|
27.2
|
1.0
|
CD2
|
A:HIS118
|
3.3
|
26.7
|
1.0
|
CHB
|
A:CLA610
|
3.4
|
30.9
|
1.0
|
CHA
|
A:CLA610
|
3.4
|
22.9
|
1.0
|
CHC
|
A:CLA610
|
3.5
|
31.3
|
1.0
|
CHD
|
A:CLA610
|
3.5
|
31.0
|
1.0
|
CG1
|
I:VAL8
|
4.2
|
36.8
|
1.0
|
C3D
|
A:CLA610
|
4.3
|
27.7
|
1.0
|
ND1
|
A:HIS118
|
4.3
|
27.2
|
1.0
|
C2B
|
A:CLA610
|
4.3
|
30.9
|
1.0
|
C3C
|
A:CLA610
|
4.3
|
30.9
|
1.0
|
C3B
|
A:CLA610
|
4.3
|
26.3
|
1.0
|
C2C
|
A:CLA610
|
4.3
|
29.5
|
1.0
|
CG2
|
I:VAL12
|
4.3
|
33.0
|
1.0
|
C2D
|
A:CLA610
|
4.4
|
28.6
|
1.0
|
C3A
|
A:CLA610
|
4.4
|
31.2
|
1.0
|
CG
|
A:HIS118
|
4.4
|
30.6
|
1.0
|
C2A
|
A:CLA610
|
4.4
|
32.8
|
1.0
|
CBD
|
A:CLA610
|
4.9
|
28.3
|
1.0
|
CMA
|
A:CLA610
|
5.0
|
30.4
|
1.0
|
|
Magnesium binding site 4 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 4 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg613
b:29.1
occ:1.00
|
MG
|
A:CLA613
|
0.0
|
29.1
|
1.0
|
ND
|
A:CLA613
|
2.0
|
27.5
|
1.0
|
NC
|
A:CLA613
|
2.0
|
27.3
|
1.0
|
NB
|
A:CLA613
|
2.1
|
34.3
|
1.0
|
NA
|
A:CLA613
|
2.1
|
26.1
|
1.0
|
O
|
A:HOH792
|
2.1
|
26.6
|
1.0
|
C4D
|
A:CLA613
|
2.9
|
27.6
|
1.0
|
C1C
|
A:CLA613
|
3.0
|
30.1
|
1.0
|
C4A
|
A:CLA613
|
3.1
|
28.9
|
1.0
|
C4B
|
A:CLA613
|
3.1
|
30.8
|
1.0
|
C4C
|
A:CLA613
|
3.1
|
28.0
|
1.0
|
C1B
|
A:CLA613
|
3.1
|
28.8
|
1.0
|
C1A
|
A:CLA613
|
3.1
|
25.6
|
1.0
|
C1D
|
A:CLA613
|
3.2
|
28.4
|
1.0
|
CHC
|
A:CLA613
|
3.4
|
24.8
|
1.0
|
CHA
|
A:CLA613
|
3.5
|
28.9
|
1.0
|
CHB
|
A:CLA613
|
3.5
|
30.9
|
1.0
|
CHD
|
A:CLA613
|
3.5
|
24.0
|
1.0
|
CBB
|
A:PHO608
|
4.0
|
27.9
|
1.0
|
O
|
A:HOH811
|
4.1
|
29.4
|
1.0
|
C3D
|
A:CLA613
|
4.3
|
26.7
|
1.0
|
C2C
|
A:CLA613
|
4.3
|
32.7
|
1.0
|
C3C
|
A:CLA613
|
4.3
|
27.7
|
1.0
|
C3B
|
A:CLA613
|
4.4
|
27.0
|
1.0
|
C2D
|
A:CLA613
|
4.4
|
24.5
|
1.0
|
C2B
|
A:CLA613
|
4.4
|
28.4
|
1.0
|
CG2
|
A:THR179
|
4.4
|
38.4
|
0.1
|
CG2
|
A:THR179
|
4.4
|
28.3
|
0.7
|
C3A
|
A:CLA613
|
4.4
|
29.2
|
1.0
|
C2A
|
A:CLA613
|
4.5
|
25.8
|
1.0
|
CG2
|
A:THR179
|
4.6
|
22.4
|
0.2
|
OG1
|
A:THR179
|
4.6
|
24.2
|
0.2
|
OG1
|
A:THR179
|
4.7
|
31.3
|
0.1
|
C19
|
A:PHO608
|
4.7
|
32.1
|
1.0
|
OG1
|
A:THR179
|
4.7
|
24.3
|
0.7
|
CBA
|
A:CLA613
|
4.8
|
26.0
|
1.0
|
CBD
|
A:CLA613
|
4.9
|
26.8
|
1.0
|
|
Magnesium binding site 5 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 5 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg601
b:30.4
occ:1.00
|
MG
|
B:CLA601
|
0.0
|
30.4
|
1.0
|
ND
|
B:CLA601
|
2.0
|
36.2
|
1.0
|
NC
|
B:CLA601
|
2.0
|
33.8
|
1.0
|
NB
|
B:CLA601
|
2.1
|
32.8
|
1.0
|
NA
|
B:CLA601
|
2.1
|
34.6
|
1.0
|
ND1
|
B:HIS201
|
2.3
|
32.4
|
1.0
|
C4D
|
B:CLA601
|
2.9
|
32.8
|
1.0
|
C1C
|
B:CLA601
|
3.1
|
36.5
|
1.0
|
CE1
|
B:HIS201
|
3.1
|
35.1
|
1.0
|
C4C
|
B:CLA601
|
3.1
|
35.7
|
1.0
|
C1B
|
B:CLA601
|
3.1
|
35.9
|
1.0
|
C4A
|
B:CLA601
|
3.1
|
36.2
|
1.0
|
C1D
|
B:CLA601
|
3.1
|
36.8
|
1.0
|
C4B
|
B:CLA601
|
3.1
|
35.4
|
1.0
|
C1A
|
B:CLA601
|
3.2
|
31.4
|
1.0
|
CG
|
B:HIS201
|
3.4
|
29.6
|
1.0
|
CHB
|
B:CLA601
|
3.5
|
32.6
|
1.0
|
CHD
|
B:CLA601
|
3.5
|
36.7
|
1.0
|
CHC
|
B:CLA601
|
3.5
|
36.1
|
1.0
|
CHA
|
B:CLA601
|
3.5
|
31.0
|
1.0
|
CB
|
B:HIS201
|
3.8
|
30.5
|
1.0
|
C3D
|
B:CLA601
|
4.2
|
32.3
|
1.0
|
NE2
|
B:HIS201
|
4.3
|
29.7
|
1.0
|
C2C
|
B:CLA601
|
4.3
|
40.8
|
1.0
|
C3C
|
B:CLA601
|
4.3
|
37.6
|
1.0
|
C2D
|
B:CLA601
|
4.3
|
37.1
|
1.0
|
CA
|
B:HIS201
|
4.3
|
32.3
|
1.0
|
C2B
|
B:CLA601
|
4.4
|
34.6
|
1.0
|
CZ
|
H:PHE41
|
4.4
|
56.7
|
1.0
|
C3B
|
B:CLA601
|
4.4
|
36.2
|
1.0
|
CD2
|
B:HIS201
|
4.4
|
27.3
|
1.0
|
C3A
|
B:CLA601
|
4.4
|
36.6
|
1.0
|
C2A
|
B:CLA601
|
4.5
|
32.0
|
1.0
|
CE1
|
B:PHE190
|
4.8
|
41.0
|
1.0
|
CE2
|
H:PHE41
|
4.8
|
55.4
|
1.0
|
CBD
|
B:CLA601
|
5.0
|
34.1
|
1.0
|
O
|
B:HIS201
|
5.0
|
30.5
|
1.0
|
|
Magnesium binding site 6 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 6 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg602
b:31.4
occ:1.00
|
MG
|
B:CLA602
|
0.0
|
31.4
|
1.0
|
NB
|
B:CLA602
|
2.0
|
26.1
|
1.0
|
ND
|
B:CLA602
|
2.1
|
30.8
|
1.0
|
NC
|
B:CLA602
|
2.1
|
28.4
|
1.0
|
NE2
|
B:HIS202
|
2.1
|
27.8
|
1.0
|
NA
|
B:CLA602
|
2.2
|
28.0
|
1.0
|
C4D
|
B:CLA602
|
3.0
|
31.6
|
1.0
|
CD2
|
B:HIS202
|
3.0
|
28.6
|
1.0
|
C1B
|
B:CLA602
|
3.0
|
26.7
|
1.0
|
C4B
|
B:CLA602
|
3.1
|
30.4
|
1.0
|
C1C
|
B:CLA602
|
3.1
|
31.5
|
1.0
|
C4A
|
B:CLA602
|
3.1
|
29.0
|
1.0
|
C4C
|
B:CLA602
|
3.1
|
30.6
|
1.0
|
C1D
|
B:CLA602
|
3.2
|
25.6
|
1.0
|
CE1
|
B:HIS202
|
3.2
|
32.2
|
1.0
|
C1A
|
B:CLA602
|
3.2
|
30.1
|
1.0
|
CHB
|
B:CLA602
|
3.4
|
27.0
|
1.0
|
CHC
|
B:CLA602
|
3.5
|
30.5
|
1.0
|
CHA
|
B:CLA602
|
3.5
|
30.5
|
1.0
|
CHD
|
B:CLA602
|
3.5
|
27.4
|
1.0
|
CG
|
B:HIS202
|
4.2
|
33.1
|
1.0
|
ND1
|
B:HIS202
|
4.3
|
28.7
|
1.0
|
C3D
|
B:CLA602
|
4.3
|
33.5
|
1.0
|
C2B
|
B:CLA602
|
4.3
|
31.8
|
1.0
|
C3B
|
B:CLA602
|
4.3
|
33.3
|
1.0
|
C2C
|
B:CLA602
|
4.4
|
28.3
|
1.0
|
C3C
|
B:CLA602
|
4.4
|
29.0
|
1.0
|
C2D
|
B:CLA602
|
4.4
|
32.0
|
1.0
|
C3A
|
B:CLA602
|
4.5
|
28.0
|
1.0
|
C2A
|
B:CLA602
|
4.6
|
31.7
|
1.0
|
C9
|
B:CLA604
|
4.6
|
34.8
|
1.0
|
C6
|
B:CLA604
|
4.7
|
36.6
|
1.0
|
C7
|
B:CLA604
|
4.7
|
37.9
|
1.0
|
NE2
|
B:HIS201
|
4.8
|
29.7
|
1.0
|
CD2
|
B:HIS201
|
4.9
|
27.3
|
1.0
|
CBD
|
B:CLA602
|
5.0
|
31.6
|
1.0
|
CE2
|
B:PHE153
|
5.0
|
33.4
|
1.0
|
|
Magnesium binding site 7 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 7 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg603
b:29.1
occ:1.00
|
MG
|
B:CLA603
|
0.0
|
29.1
|
1.0
|
ND
|
B:CLA603
|
2.0
|
25.6
|
1.0
|
NB
|
B:CLA603
|
2.0
|
33.8
|
1.0
|
NC
|
B:CLA603
|
2.1
|
30.3
|
1.0
|
NE2
|
B:HIS455
|
2.2
|
25.3
|
1.0
|
NA
|
B:CLA603
|
2.2
|
31.5
|
1.0
|
C4D
|
B:CLA603
|
3.0
|
29.2
|
1.0
|
CD2
|
B:HIS455
|
3.0
|
28.9
|
1.0
|
C1B
|
B:CLA603
|
3.0
|
29.1
|
1.0
|
C4B
|
B:CLA603
|
3.1
|
30.6
|
1.0
|
C1C
|
B:CLA603
|
3.1
|
29.1
|
1.0
|
C1D
|
B:CLA603
|
3.1
|
30.2
|
1.0
|
C4C
|
B:CLA603
|
3.1
|
29.8
|
1.0
|
C4A
|
B:CLA603
|
3.1
|
34.1
|
1.0
|
CE1
|
B:HIS455
|
3.3
|
27.2
|
1.0
|
C1A
|
B:CLA603
|
3.3
|
32.6
|
1.0
|
CHB
|
B:CLA603
|
3.4
|
29.6
|
1.0
|
CHC
|
B:CLA603
|
3.5
|
29.8
|
1.0
|
CHD
|
B:CLA603
|
3.5
|
28.0
|
1.0
|
CHA
|
B:CLA603
|
3.6
|
33.6
|
1.0
|
C14
|
B:CLA611
|
3.9
|
33.1
|
1.0
|
CG
|
B:HIS455
|
4.2
|
25.1
|
1.0
|
C3D
|
B:CLA603
|
4.3
|
28.8
|
1.0
|
C2B
|
B:CLA603
|
4.3
|
27.1
|
1.0
|
C3B
|
B:CLA603
|
4.3
|
29.1
|
1.0
|
ND1
|
B:HIS455
|
4.3
|
21.5
|
1.0
|
C2D
|
B:CLA603
|
4.4
|
30.3
|
1.0
|
C2C
|
B:CLA603
|
4.4
|
27.6
|
1.0
|
C3C
|
B:CLA603
|
4.4
|
31.9
|
1.0
|
C3A
|
B:CLA603
|
4.5
|
30.0
|
1.0
|
C2A
|
B:CLA603
|
4.6
|
30.2
|
1.0
|
C15
|
B:CLA611
|
4.7
|
35.6
|
1.0
|
C13
|
B:CLA611
|
4.8
|
36.0
|
1.0
|
|
Magnesium binding site 8 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 8 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg604
b:29.6
occ:1.00
|
MG
|
B:CLA604
|
0.0
|
29.6
|
1.0
|
ND
|
B:CLA604
|
2.0
|
32.3
|
1.0
|
NA
|
B:CLA604
|
2.0
|
29.9
|
1.0
|
NC
|
B:CLA604
|
2.1
|
30.1
|
1.0
|
NB
|
B:CLA604
|
2.1
|
28.2
|
1.0
|
NE2
|
B:HIS100
|
2.2
|
26.6
|
1.0
|
C4D
|
B:CLA604
|
2.9
|
26.4
|
1.0
|
C1A
|
B:CLA604
|
3.0
|
29.1
|
1.0
|
C4A
|
B:CLA604
|
3.1
|
30.3
|
1.0
|
C1C
|
B:CLA604
|
3.1
|
32.7
|
1.0
|
C4C
|
B:CLA604
|
3.1
|
31.7
|
1.0
|
C1B
|
B:CLA604
|
3.1
|
27.2
|
1.0
|
C4B
|
B:CLA604
|
3.1
|
29.9
|
1.0
|
CE1
|
B:HIS100
|
3.1
|
28.6
|
1.0
|
C1D
|
B:CLA604
|
3.2
|
33.2
|
1.0
|
CD2
|
B:HIS100
|
3.2
|
29.6
|
1.0
|
CHA
|
B:CLA604
|
3.4
|
31.3
|
1.0
|
CHC
|
B:CLA604
|
3.5
|
31.9
|
1.0
|
CHB
|
B:CLA604
|
3.5
|
28.6
|
1.0
|
CHD
|
B:CLA604
|
3.5
|
32.8
|
1.0
|
C3D
|
B:CLA604
|
4.2
|
30.3
|
1.0
|
ND1
|
B:HIS100
|
4.3
|
26.6
|
1.0
|
CG
|
B:HIS100
|
4.3
|
28.1
|
1.0
|
C2C
|
B:CLA604
|
4.3
|
32.9
|
1.0
|
C2D
|
B:CLA604
|
4.3
|
28.5
|
1.0
|
C3C
|
B:CLA604
|
4.4
|
34.0
|
1.0
|
C2A
|
B:CLA604
|
4.4
|
28.1
|
1.0
|
C3A
|
B:CLA604
|
4.4
|
32.5
|
1.0
|
C2
|
B:CLA603
|
4.4
|
37.8
|
1.0
|
C3B
|
B:CLA604
|
4.4
|
34.1
|
1.0
|
C2B
|
B:CLA604
|
4.4
|
34.7
|
1.0
|
C1
|
B:CLA603
|
4.6
|
37.6
|
1.0
|
CBD
|
B:CLA604
|
4.8
|
31.1
|
1.0
|
CBA
|
B:CLA604
|
4.9
|
28.8
|
1.0
|
|
Magnesium binding site 9 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 9 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg605
b:32.8
occ:1.00
|
MG
|
B:CLA605
|
0.0
|
32.8
|
1.0
|
ND
|
B:CLA605
|
2.0
|
36.0
|
1.0
|
NC
|
B:CLA605
|
2.1
|
31.0
|
1.0
|
NB
|
B:CLA605
|
2.1
|
32.1
|
1.0
|
ND1
|
B:HIS157
|
2.2
|
29.6
|
1.0
|
NA
|
B:CLA605
|
2.2
|
28.1
|
1.0
|
CE1
|
B:HIS157
|
2.9
|
30.1
|
1.0
|
C4D
|
B:CLA605
|
3.0
|
37.9
|
1.0
|
C1C
|
B:CLA605
|
3.1
|
32.8
|
1.0
|
C1B
|
B:CLA605
|
3.1
|
30.5
|
1.0
|
C4B
|
B:CLA605
|
3.1
|
34.1
|
1.0
|
C4C
|
B:CLA605
|
3.1
|
34.8
|
1.0
|
C4A
|
B:CLA605
|
3.2
|
32.9
|
1.0
|
C1D
|
B:CLA605
|
3.2
|
33.6
|
1.0
|
C1A
|
B:CLA605
|
3.2
|
32.6
|
1.0
|
CG
|
B:HIS157
|
3.4
|
28.2
|
1.0
|
CHC
|
B:CLA605
|
3.4
|
31.7
|
1.0
|
CHB
|
B:CLA605
|
3.5
|
31.2
|
1.0
|
CHA
|
B:CLA605
|
3.5
|
36.3
|
1.0
|
CHD
|
B:CLA605
|
3.5
|
33.5
|
1.0
|
CB
|
B:HIS157
|
3.9
|
32.8
|
1.0
|
C8
|
B:STE619
|
4.0
|
38.6
|
1.0
|
NE2
|
B:HIS157
|
4.1
|
31.8
|
1.0
|
C6
|
B:STE619
|
4.3
|
40.3
|
1.0
|
C3D
|
B:CLA605
|
4.3
|
39.9
|
1.0
|
C2C
|
B:CLA605
|
4.3
|
32.4
|
1.0
|
C3C
|
B:CLA605
|
4.4
|
38.2
|
1.0
|
CD2
|
B:HIS157
|
4.4
|
31.8
|
1.0
|
C3B
|
B:CLA605
|
4.4
|
29.9
|
1.0
|
C2D
|
B:CLA605
|
4.4
|
38.3
|
1.0
|
C2B
|
B:CLA605
|
4.4
|
34.8
|
1.0
|
C7
|
B:STE619
|
4.4
|
38.0
|
1.0
|
C3A
|
B:CLA605
|
4.5
|
30.7
|
1.0
|
C2A
|
B:CLA605
|
4.6
|
31.8
|
1.0
|
CD
|
B:PRO164
|
5.0
|
32.0
|
1.0
|
CBD
|
B:CLA605
|
5.0
|
40.0
|
1.0
|
CA
|
B:HIS157
|
5.0
|
32.3
|
1.0
|
|
Magnesium binding site 10 out
of 70 in 8f4e
Go back to
Magnesium Binding Sites List in 8f4e
Magnesium binding site 10 out
of 70 in the Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Rt Xfel Structure of Photosystem II 250 Microseconds After the Third Illumination at 2.09 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg606
b:28.4
occ:1.00
|
MG
|
B:CLA606
|
0.0
|
28.4
|
1.0
|
NB
|
B:CLA606
|
1.9
|
25.7
|
1.0
|
NC
|
B:CLA606
|
2.0
|
24.7
|
1.0
|
ND
|
B:CLA606
|
2.1
|
25.9
|
1.0
|
NA
|
B:CLA606
|
2.2
|
25.7
|
1.0
|
O
|
B:HOH849
|
2.2
|
26.1
|
1.0
|
C1B
|
B:CLA606
|
3.0
|
24.8
|
1.0
|
C4B
|
B:CLA606
|
3.0
|
23.2
|
1.0
|
C4D
|
B:CLA606
|
3.0
|
28.3
|
1.0
|
C1C
|
B:CLA606
|
3.0
|
23.7
|
1.0
|
C4A
|
B:CLA606
|
3.1
|
26.5
|
1.0
|
C4C
|
B:CLA606
|
3.1
|
28.1
|
1.0
|
C1D
|
B:CLA606
|
3.2
|
30.7
|
1.0
|
C1A
|
B:CLA606
|
3.2
|
23.1
|
1.0
|
CHC
|
B:CLA606
|
3.4
|
24.0
|
1.0
|
CHB
|
B:CLA606
|
3.4
|
23.7
|
1.0
|
CHA
|
B:CLA606
|
3.5
|
28.0
|
1.0
|
CHD
|
B:CLA606
|
3.6
|
26.2
|
1.0
|
C12
|
M:LMG101
|
3.9
|
39.3
|
1.0
|
C14
|
M:LMG101
|
4.0
|
35.4
|
1.0
|
C2B
|
B:CLA606
|
4.2
|
26.9
|
1.0
|
C3B
|
B:CLA606
|
4.2
|
21.7
|
1.0
|
O
|
B:HOH742
|
4.3
|
28.2
|
1.0
|
C3D
|
B:CLA606
|
4.3
|
31.3
|
1.0
|
C2C
|
B:CLA606
|
4.3
|
24.0
|
1.0
|
C3C
|
B:CLA606
|
4.3
|
24.9
|
1.0
|
SD
|
B:MET37
|
4.4
|
28.6
|
1.0
|
C2D
|
B:CLA606
|
4.4
|
30.1
|
1.0
|
C15
|
M:LMG101
|
4.5
|
33.2
|
1.0
|
C3A
|
B:CLA606
|
4.5
|
25.6
|
1.0
|
C2A
|
B:CLA606
|
4.5
|
28.8
|
1.0
|
CD2
|
B:PHE61
|
4.6
|
25.2
|
1.0
|
C13
|
M:LMG101
|
4.7
|
37.5
|
1.0
|
CE
|
B:MET37
|
4.7
|
28.2
|
1.0
|
CBA
|
B:CLA606
|
4.9
|
27.0
|
1.0
|
CB
|
B:PHE61
|
4.9
|
30.6
|
1.0
|
CG
|
B:PHE61
|
5.0
|
27.4
|
1.0
|
CBD
|
B:CLA606
|
5.0
|
30.5
|
1.0
|
|
Reference:
A.Bhowmick,
R.Hussein,
I.Bogacz,
P.S.Simon,
M.Ibrahim,
R.Chatterjee,
M.D.Doyle,
M.H.Cheah,
T.Fransson,
P.Chernev,
I.-S.Kim,
H.Makita,
M.Dasgupta,
C.J.Kaminsky,
M.Zhang,
J.Gatcke,
S.Haupt,
I.I.Nangca,
S.M.Keable,
O.Aydin,
K.Tono,
S.Owada,
L.B.Gee,
F.D.Fuller,
A.Batyuk,
R.Alonso-Mori,
J.M.Holton,
D.W.Paley,
N.W.Moriarty,
F.Mamedov,
P.D.Adams,
A.S.Brewster,
H.Dobbek,
N.K.Sauter,
U.Bergmann,
A.Zouni,
J.Messinger,
J.Kern,
J.Yano,
V.K.Yachandra.
Structural Evidence For Intermediates During O2 Formation in Photosystem II To Be Published.
Page generated: Fri Oct 4 01:36:47 2024
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