Magnesium in PDB 6vec: Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Magnesium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
11;
Binding sites:
The binding sites of Magnesium atom in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
(pdb code 6vec). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 11 binding sites of Magnesium where determined in the
Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex, PDB code: 6vec:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 1 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg402
b:35.7
occ:1.00
|
O1B
|
A:ADP401
|
2.0
|
46.8
|
1.0
|
PB
|
A:ADP401
|
3.0
|
46.8
|
1.0
|
OE1
|
A:GLN139
|
3.0
|
46.4
|
1.0
|
O3B
|
A:ADP401
|
3.1
|
46.8
|
1.0
|
OD2
|
A:ASP156
|
3.4
|
47.6
|
1.0
|
CD
|
A:GLN139
|
3.9
|
46.4
|
1.0
|
O3A
|
A:ADP401
|
3.9
|
46.8
|
1.0
|
OD1
|
A:ASP156
|
4.0
|
47.6
|
1.0
|
CG
|
A:ASP156
|
4.1
|
47.6
|
1.0
|
CA
|
A:GLY158
|
4.1
|
46.8
|
1.0
|
NE2
|
A:GLN139
|
4.2
|
46.4
|
1.0
|
O2B
|
A:ADP401
|
4.2
|
46.8
|
1.0
|
O1A
|
A:ADP401
|
4.3
|
46.8
|
1.0
|
N
|
A:GLY158
|
4.7
|
46.8
|
1.0
|
N
|
A:ASP159
|
4.8
|
50.4
|
1.0
|
PA
|
A:ADP401
|
4.9
|
46.8
|
1.0
|
CA
|
A:GLY15
|
5.0
|
47.1
|
1.0
|
|
Magnesium binding site 2 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 2 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg402
b:74.3
occ:1.00
|
O1B
|
B:ADP401
|
2.0
|
49.2
|
1.0
|
PB
|
B:ADP401
|
3.0
|
49.2
|
1.0
|
OE1
|
B:GLN139
|
3.0
|
47.8
|
1.0
|
O3B
|
B:ADP401
|
3.1
|
49.2
|
1.0
|
OD2
|
B:ASP156
|
3.4
|
47.5
|
1.0
|
CD
|
B:GLN139
|
3.9
|
47.8
|
1.0
|
O3A
|
B:ADP401
|
3.9
|
49.2
|
1.0
|
OD1
|
B:ASP156
|
4.0
|
47.5
|
1.0
|
CG
|
B:ASP156
|
4.1
|
47.5
|
1.0
|
CA
|
B:GLY158
|
4.1
|
47.6
|
1.0
|
NE2
|
B:GLN139
|
4.2
|
47.8
|
1.0
|
O2B
|
B:ADP401
|
4.2
|
49.2
|
1.0
|
O1A
|
B:ADP401
|
4.3
|
49.2
|
1.0
|
N
|
B:GLY158
|
4.7
|
47.6
|
1.0
|
N
|
B:ASP159
|
4.8
|
50.5
|
1.0
|
PA
|
B:ADP401
|
4.9
|
49.2
|
1.0
|
CA
|
B:GLY15
|
5.0
|
47.8
|
1.0
|
|
Magnesium binding site 3 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 3 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg402
b:41.3
occ:1.00
|
O1B
|
C:ADP401
|
2.0
|
48.1
|
1.0
|
PB
|
C:ADP401
|
3.0
|
48.1
|
1.0
|
OE1
|
C:GLN139
|
3.0
|
48.5
|
1.0
|
O3B
|
C:ADP401
|
3.1
|
48.1
|
1.0
|
OD2
|
C:ASP156
|
3.4
|
48.7
|
1.0
|
CD
|
C:GLN139
|
3.9
|
48.5
|
1.0
|
O3A
|
C:ADP401
|
3.9
|
48.1
|
1.0
|
OD1
|
C:ASP156
|
4.0
|
48.7
|
1.0
|
CG
|
C:ASP156
|
4.1
|
48.7
|
1.0
|
CA
|
C:GLY158
|
4.1
|
47.7
|
1.0
|
NE2
|
C:GLN139
|
4.2
|
48.5
|
1.0
|
O2B
|
C:ADP401
|
4.2
|
48.1
|
1.0
|
O1A
|
C:ADP401
|
4.3
|
48.1
|
1.0
|
N
|
C:GLY158
|
4.7
|
47.7
|
1.0
|
N
|
C:ASP159
|
4.8
|
51.3
|
1.0
|
PA
|
C:ADP401
|
4.9
|
48.1
|
1.0
|
CA
|
C:GLY15
|
5.0
|
49.5
|
1.0
|
|
Magnesium binding site 4 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 4 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg402
b:35.2
occ:1.00
|
O1B
|
D:ADP401
|
2.0
|
45.4
|
1.0
|
PB
|
D:ADP401
|
3.0
|
45.4
|
1.0
|
OE1
|
D:GLN139
|
3.0
|
46.9
|
1.0
|
O3B
|
D:ADP401
|
3.1
|
45.4
|
1.0
|
OD2
|
D:ASP156
|
3.4
|
44.8
|
1.0
|
CD
|
D:GLN139
|
3.9
|
46.9
|
1.0
|
O3A
|
D:ADP401
|
3.9
|
45.4
|
1.0
|
OD1
|
D:ASP156
|
4.0
|
44.8
|
1.0
|
CG
|
D:ASP156
|
4.1
|
44.8
|
1.0
|
CA
|
D:GLY158
|
4.1
|
43.9
|
1.0
|
NE2
|
D:GLN139
|
4.2
|
46.9
|
1.0
|
O2B
|
D:ADP401
|
4.2
|
45.4
|
1.0
|
O1A
|
D:ADP401
|
4.3
|
45.4
|
1.0
|
N
|
D:GLY158
|
4.7
|
43.9
|
1.0
|
N
|
D:ASP159
|
4.8
|
47.4
|
1.0
|
PA
|
D:ADP401
|
4.9
|
45.4
|
1.0
|
CA
|
D:GLY15
|
5.0
|
47.7
|
1.0
|
|
Magnesium binding site 5 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 5 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg402
b:47.4
occ:1.00
|
O1B
|
E:ADP401
|
2.0
|
53.1
|
1.0
|
PB
|
E:ADP401
|
3.0
|
53.1
|
1.0
|
OE1
|
E:GLN139
|
3.0
|
56.2
|
1.0
|
O3B
|
E:ADP401
|
3.1
|
53.1
|
1.0
|
OD2
|
E:ASP156
|
3.4
|
55.4
|
1.0
|
CD
|
E:GLN139
|
3.9
|
56.2
|
1.0
|
O3A
|
E:ADP401
|
3.9
|
53.1
|
1.0
|
OD1
|
E:ASP156
|
4.0
|
55.4
|
1.0
|
CG
|
E:ASP156
|
4.1
|
55.4
|
1.0
|
CA
|
E:GLY158
|
4.1
|
52.6
|
1.0
|
NE2
|
E:GLN139
|
4.2
|
56.2
|
1.0
|
O2B
|
E:ADP401
|
4.2
|
53.1
|
1.0
|
O1A
|
E:ADP401
|
4.3
|
53.1
|
1.0
|
N
|
E:GLY158
|
4.7
|
52.6
|
1.0
|
N
|
E:ASP159
|
4.8
|
55.2
|
1.0
|
PA
|
E:ADP401
|
4.9
|
53.1
|
1.0
|
CA
|
E:GLY15
|
5.0
|
53.2
|
1.0
|
|
Magnesium binding site 6 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 6 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mg402
b:41.8
occ:1.00
|
O1B
|
F:ADP401
|
2.0
|
51.9
|
1.0
|
PB
|
F:ADP401
|
3.0
|
51.9
|
1.0
|
OE1
|
F:GLN139
|
3.0
|
50.8
|
1.0
|
O3B
|
F:ADP401
|
3.1
|
51.9
|
1.0
|
OD2
|
F:ASP156
|
3.4
|
50.2
|
1.0
|
CD
|
F:GLN139
|
3.9
|
50.8
|
1.0
|
O3A
|
F:ADP401
|
3.9
|
51.9
|
1.0
|
OD1
|
F:ASP156
|
4.0
|
50.2
|
1.0
|
CG
|
F:ASP156
|
4.1
|
50.2
|
1.0
|
CA
|
F:GLY158
|
4.1
|
49.9
|
1.0
|
NE2
|
F:GLN139
|
4.2
|
50.8
|
1.0
|
O2B
|
F:ADP401
|
4.2
|
51.9
|
1.0
|
O1A
|
F:ADP401
|
4.3
|
51.9
|
1.0
|
N
|
F:GLY158
|
4.7
|
49.9
|
1.0
|
N
|
F:ASP159
|
4.8
|
53.3
|
1.0
|
PA
|
F:ADP401
|
4.9
|
51.9
|
1.0
|
CA
|
F:GLY15
|
5.0
|
53.2
|
1.0
|
|
Magnesium binding site 7 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 7 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Mg402
b:72.5
occ:1.00
|
O1B
|
G:ADP401
|
2.0
|
67.5
|
1.0
|
PB
|
G:ADP401
|
3.0
|
67.5
|
1.0
|
OE1
|
G:GLN139
|
3.0
|
73.8
|
1.0
|
O3B
|
G:ADP401
|
3.1
|
67.5
|
1.0
|
OD2
|
G:ASP156
|
3.4
|
73.8
|
1.0
|
CD
|
G:GLN139
|
3.9
|
73.8
|
1.0
|
O3A
|
G:ADP401
|
3.9
|
67.5
|
1.0
|
OD1
|
G:ASP156
|
4.0
|
73.8
|
1.0
|
CG
|
G:ASP156
|
4.1
|
73.8
|
1.0
|
CA
|
G:GLY158
|
4.1
|
68.4
|
1.0
|
NE2
|
G:GLN139
|
4.2
|
73.8
|
1.0
|
O2B
|
G:ADP401
|
4.2
|
67.5
|
1.0
|
O1A
|
G:ADP401
|
4.3
|
67.5
|
1.0
|
N
|
G:GLY158
|
4.7
|
68.4
|
1.0
|
N
|
G:ASP159
|
4.8
|
69.2
|
1.0
|
PA
|
G:ADP401
|
4.9
|
67.5
|
1.0
|
CA
|
G:GLY15
|
5.0
|
68.5
|
1.0
|
|
Magnesium binding site 8 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 8 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Mg402
b:61.0
occ:1.00
|
O1B
|
H:ADP401
|
2.0
|
67.7
|
1.0
|
PB
|
H:ADP401
|
3.0
|
67.7
|
1.0
|
OE1
|
H:GLN139
|
3.0
|
62.1
|
1.0
|
O3B
|
H:ADP401
|
3.1
|
67.7
|
1.0
|
OD2
|
H:ASP156
|
3.4
|
61.4
|
1.0
|
CD
|
H:GLN139
|
3.9
|
62.1
|
1.0
|
O3A
|
H:ADP401
|
3.9
|
67.7
|
1.0
|
OD1
|
H:ASP156
|
4.0
|
61.4
|
1.0
|
CG
|
H:ASP156
|
4.1
|
61.4
|
1.0
|
CA
|
H:GLY158
|
4.1
|
64.2
|
1.0
|
NE2
|
H:GLN139
|
4.2
|
62.1
|
1.0
|
O2B
|
H:ADP401
|
4.2
|
67.7
|
1.0
|
O1A
|
H:ADP401
|
4.3
|
67.7
|
1.0
|
N
|
H:GLY158
|
4.7
|
64.2
|
1.0
|
N
|
H:ASP159
|
4.8
|
68.4
|
1.0
|
PA
|
H:ADP401
|
4.9
|
67.7
|
1.0
|
CA
|
H:GLY15
|
5.0
|
70.4
|
1.0
|
|
Magnesium binding site 9 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 9 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Mg402
b:94.1
occ:1.00
|
O1B
|
I:ADP401
|
2.0
|
94.2
|
1.0
|
PB
|
I:ADP401
|
3.0
|
94.2
|
1.0
|
OE1
|
I:GLN139
|
3.0
|
98.6
|
1.0
|
O3B
|
I:ADP401
|
3.1
|
94.2
|
1.0
|
OD2
|
I:ASP156
|
3.4
|
0.5
|
1.0
|
CD
|
I:GLN139
|
3.9
|
98.6
|
1.0
|
O3A
|
I:ADP401
|
3.9
|
94.2
|
1.0
|
OD1
|
I:ASP156
|
4.0
|
0.5
|
1.0
|
CG
|
I:ASP156
|
4.1
|
0.5
|
1.0
|
CA
|
I:GLY158
|
4.1
|
95.5
|
1.0
|
NE2
|
I:GLN139
|
4.2
|
98.6
|
1.0
|
O2B
|
I:ADP401
|
4.2
|
94.2
|
1.0
|
O1A
|
I:ADP401
|
4.3
|
94.2
|
1.0
|
N
|
I:GLY158
|
4.7
|
95.5
|
1.0
|
N
|
I:ASP159
|
4.8
|
96.0
|
1.0
|
PA
|
I:ADP401
|
4.9
|
94.2
|
1.0
|
CA
|
I:GLY15
|
5.0
|
93.9
|
1.0
|
|
Magnesium binding site 10 out
of 11 in 6vec
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Magnesium Binding Sites List in 6vec
Magnesium binding site 10 out
of 11 in the Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Mg402
b:79.4
occ:1.00
|
O1B
|
J:ADP401
|
2.0
|
93.8
|
1.0
|
PB
|
J:ADP401
|
3.0
|
93.8
|
1.0
|
OE1
|
J:GLN139
|
3.0
|
84.3
|
1.0
|
O3B
|
J:ADP401
|
3.1
|
93.8
|
1.0
|
OD2
|
J:ASP156
|
3.4
|
83.8
|
1.0
|
CD
|
J:GLN139
|
3.9
|
84.3
|
1.0
|
O3A
|
J:ADP401
|
3.9
|
93.8
|
1.0
|
OD1
|
J:ASP156
|
4.0
|
83.8
|
1.0
|
CG
|
J:ASP156
|
4.1
|
83.8
|
1.0
|
CA
|
J:GLY158
|
4.1
|
88.9
|
1.0
|
NE2
|
J:GLN139
|
4.2
|
84.3
|
1.0
|
O2B
|
J:ADP401
|
4.2
|
93.8
|
1.0
|
O1A
|
J:ADP401
|
4.3
|
93.8
|
1.0
|
N
|
J:GLY158
|
4.7
|
88.9
|
1.0
|
N
|
J:ASP159
|
4.8
|
94.3
|
1.0
|
PA
|
J:ADP401
|
4.9
|
93.8
|
1.0
|
CA
|
J:GLY15
|
5.0
|
94.6
|
1.0
|
|
Reference:
W.Zheng,
D.S.Kudryashov,
E.H.Egelman.
Cryo-Em Structure of F-Actin/PLASTIN2-ABD2 Complex To Be Published.
Page generated: Tue Oct 1 22:01:30 2024
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