Magnesium in PDB 7z8m: The Pointed End Complex of Dynactin Bound to BICDR1
Other elements in 7z8m:
The structure of The Pointed End Complex of Dynactin Bound to BICDR1 also contains other interesting chemical elements:
Magnesium Binding Sites:
The binding sites of Magnesium atom in the The Pointed End Complex of Dynactin Bound to BICDR1
(pdb code 7z8m). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the
The Pointed End Complex of Dynactin Bound to BICDR1, PDB code: 7z8m:
Jump to Magnesium binding site number:
1;
2;
3;
4;
Magnesium binding site 1 out
of 4 in 7z8m
Go back to
Magnesium Binding Sites List in 7z8m
Magnesium binding site 1 out
of 4 in the The Pointed End Complex of Dynactin Bound to BICDR1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of The Pointed End Complex of Dynactin Bound to BICDR1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Mg801
b:77.2
occ:1.00
|
O2G
|
J:ATP800
|
3.0
|
40.6
|
1.0
|
OD2
|
J:ASP140
|
3.0
|
61.7
|
1.0
|
O1B
|
J:ATP800
|
3.2
|
35.7
|
1.0
|
O1A
|
J:ATP800
|
3.4
|
42.1
|
1.0
|
CG
|
J:ASP140
|
3.9
|
56.6
|
1.0
|
OD1
|
J:ASP140
|
4.1
|
58.0
|
1.0
|
PB
|
J:ATP800
|
4.1
|
35.1
|
1.0
|
O3A
|
J:ATP800
|
4.1
|
35.2
|
1.0
|
PG
|
J:ATP800
|
4.3
|
44.6
|
1.0
|
PA
|
J:ATP800
|
4.4
|
37.0
|
1.0
|
NZ
|
J:LYS26
|
4.4
|
45.9
|
1.0
|
O3B
|
J:ATP800
|
4.4
|
36.2
|
1.0
|
CA
|
J:GLY307
|
4.6
|
47.0
|
1.0
|
CA
|
J:GLY142
|
4.6
|
50.9
|
1.0
|
OD2
|
J:ASP19
|
4.8
|
50.9
|
1.0
|
|
Magnesium binding site 2 out
of 4 in 7z8m
Go back to
Magnesium Binding Sites List in 7z8m
Magnesium binding site 2 out
of 4 in the The Pointed End Complex of Dynactin Bound to BICDR1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of The Pointed End Complex of Dynactin Bound to BICDR1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Mg801
b:47.1
occ:1.00
|
O3B
|
G:ADP800
|
1.9
|
44.5
|
1.0
|
PB
|
G:ADP800
|
2.9
|
44.0
|
1.0
|
O1B
|
G:ADP800
|
3.3
|
45.7
|
1.0
|
CG
|
G:GLN142
|
3.5
|
47.9
|
1.0
|
O2B
|
G:ADP800
|
3.7
|
40.4
|
1.0
|
NE2
|
G:GLN142
|
3.7
|
49.6
|
1.0
|
OD1
|
G:ASP159
|
4.0
|
49.5
|
1.0
|
OD1
|
G:ASP15
|
4.1
|
49.0
|
1.0
|
CD
|
G:GLN142
|
4.1
|
49.3
|
1.0
|
OD2
|
G:ASP159
|
4.2
|
50.7
|
1.0
|
O3A
|
G:ADP800
|
4.3
|
37.9
|
1.0
|
OD2
|
G:ASP15
|
4.3
|
47.3
|
1.0
|
CG
|
G:ASP159
|
4.5
|
48.9
|
1.0
|
CG
|
G:ASP15
|
4.6
|
47.4
|
1.0
|
CA
|
G:GLY17
|
4.7
|
40.2
|
1.0
|
CB
|
G:GLN142
|
4.7
|
48.3
|
1.0
|
OG1
|
G:THR340
|
4.8
|
42.1
|
1.0
|
|
Magnesium binding site 3 out
of 4 in 7z8m
Go back to
Magnesium Binding Sites List in 7z8m
Magnesium binding site 3 out
of 4 in the The Pointed End Complex of Dynactin Bound to BICDR1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of The Pointed End Complex of Dynactin Bound to BICDR1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Mg801
b:45.9
occ:1.00
|
O1B
|
H:ADP800
|
2.2
|
51.0
|
1.0
|
PB
|
H:ADP800
|
2.9
|
51.0
|
1.0
|
O3B
|
H:ADP800
|
3.0
|
49.7
|
1.0
|
O3A
|
H:ADP800
|
3.0
|
46.6
|
1.0
|
O1A
|
H:ADP800
|
3.5
|
48.1
|
1.0
|
PA
|
H:ADP800
|
3.8
|
44.5
|
1.0
|
CG1
|
H:VAL339
|
4.1
|
44.9
|
1.0
|
OE1
|
H:GLN137
|
4.1
|
46.6
|
1.0
|
CA
|
H:GLY301
|
4.2
|
42.7
|
1.0
|
OD1
|
H:ASP154
|
4.2
|
48.1
|
1.0
|
OD2
|
H:ASP154
|
4.3
|
45.7
|
1.0
|
O2B
|
H:ADP800
|
4.3
|
46.9
|
1.0
|
NZ
|
H:LYS18
|
4.3
|
45.9
|
1.0
|
OD2
|
H:ASP11
|
4.5
|
48.3
|
1.0
|
CA
|
H:GLY156
|
4.5
|
42.5
|
1.0
|
CB
|
H:VAL339
|
4.6
|
42.0
|
1.0
|
O2A
|
H:ADP800
|
4.7
|
45.1
|
1.0
|
CD
|
H:GLN137
|
4.7
|
45.7
|
1.0
|
CG
|
H:ASP154
|
4.7
|
45.9
|
1.0
|
N
|
H:GLY302
|
4.8
|
40.5
|
1.0
|
CG2
|
H:VAL339
|
4.9
|
42.3
|
1.0
|
NE2
|
H:GLN137
|
5.0
|
46.9
|
1.0
|
OD1
|
H:ASP11
|
5.0
|
49.8
|
1.0
|
|
Magnesium binding site 4 out
of 4 in 7z8m
Go back to
Magnesium Binding Sites List in 7z8m
Magnesium binding site 4 out
of 4 in the The Pointed End Complex of Dynactin Bound to BICDR1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of The Pointed End Complex of Dynactin Bound to BICDR1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Mg801
b:68.6
occ:1.00
|
O3B
|
I:ADP800
|
2.3
|
59.4
|
1.0
|
O2B
|
I:ADP800
|
2.8
|
55.7
|
1.0
|
PB
|
I:ADP800
|
3.0
|
65.7
|
1.0
|
OD1
|
I:ASP15
|
3.1
|
58.9
|
1.0
|
OD2
|
I:ASP15
|
3.2
|
55.1
|
1.0
|
OG1
|
I:THR340
|
3.4
|
51.5
|
1.0
|
CG
|
I:ASP15
|
3.6
|
56.1
|
1.0
|
CG2
|
I:THR340
|
3.7
|
49.2
|
1.0
|
CG
|
I:GLN142
|
3.8
|
60.3
|
1.0
|
CB
|
I:THR340
|
4.0
|
47.7
|
1.0
|
O3A
|
I:ADP800
|
4.1
|
54.2
|
1.0
|
O1B
|
I:ADP800
|
4.2
|
64.6
|
1.0
|
O2A
|
I:ADP800
|
4.4
|
53.0
|
1.0
|
OD2
|
I:ASP159
|
4.5
|
55.5
|
1.0
|
CB
|
I:GLN142
|
4.6
|
57.1
|
1.0
|
OD1
|
I:ASP159
|
4.6
|
56.8
|
1.0
|
NE2
|
I:GLN142
|
4.6
|
62.0
|
1.0
|
CD
|
I:GLN142
|
4.7
|
60.8
|
1.0
|
PA
|
I:ADP800
|
4.7
|
47.5
|
1.0
|
NZ
|
I:LYS22
|
4.9
|
51.2
|
1.0
|
CA
|
I:GLY17
|
4.9
|
56.5
|
1.0
|
CG
|
I:ASP159
|
5.0
|
55.2
|
1.0
|
|
Reference:
S.Chaaban,
A.P.Carter.
Structure of Dynein-Dynactin on Microtubules Shows Tandem Adaptor Binding. Nature V. 610 212 2022.
ISSN: ESSN 1476-4687
PubMed: 36071160
DOI: 10.1038/S41586-022-05186-Y
Page generated: Thu Oct 3 16:19:06 2024
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