Calcium in PDB 7pxh: Emodepside-Bound Drosophila Slo Channel
Other elements in 7pxh:
The structure of Emodepside-Bound Drosophila Slo Channel also contains other interesting chemical elements:
Calcium Binding Sites:
The binding sites of Calcium atom in the Emodepside-Bound Drosophila Slo Channel
(pdb code 7pxh). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the
Emodepside-Bound Drosophila Slo Channel, PDB code: 7pxh:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Calcium binding site 1 out
of 8 in 7pxh
Go back to
Calcium Binding Sites List in 7pxh
Calcium binding site 1 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_01.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_01_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1201
b:59.9
occ:1.00
|
O
|
A:ASP980
|
2.5
|
64.0
|
1.0
|
OD1
|
A:ASP985
|
2.5
|
72.0
|
1.0
|
OD2
|
A:ASP985
|
2.5
|
72.0
|
1.0
|
OD1
|
A:ASP983
|
2.5
|
71.5
|
1.0
|
O
|
A:GLN977
|
2.5
|
58.5
|
1.0
|
OD1
|
C:ASN463
|
2.6
|
52.7
|
1.0
|
CG
|
A:ASP985
|
2.9
|
72.0
|
1.0
|
CG
|
A:ASP983
|
3.3
|
71.5
|
1.0
|
CG
|
C:ASN463
|
3.5
|
52.7
|
1.0
|
OD2
|
A:ASP983
|
3.5
|
71.5
|
1.0
|
C
|
A:ASP980
|
3.6
|
64.0
|
1.0
|
C
|
A:GLN977
|
3.7
|
58.5
|
1.0
|
O
|
A:ASP983
|
3.7
|
71.5
|
1.0
|
ND2
|
C:ASN463
|
3.7
|
52.7
|
1.0
|
CA
|
A:GLN977
|
4.3
|
58.5
|
1.0
|
N
|
A:GLN981
|
4.3
|
67.6
|
1.0
|
CA
|
A:GLN981
|
4.4
|
67.6
|
1.0
|
CB
|
A:ASP985
|
4.4
|
72.0
|
1.0
|
C
|
A:ASP983
|
4.4
|
71.5
|
1.0
|
CA
|
A:ASP980
|
4.5
|
64.0
|
1.0
|
O
|
A:GLN981
|
4.5
|
67.6
|
1.0
|
C
|
A:GLN981
|
4.6
|
67.6
|
1.0
|
CB
|
A:ASP983
|
4.6
|
71.5
|
1.0
|
N
|
A:ASP980
|
4.6
|
64.0
|
1.0
|
CB
|
A:GLN977
|
4.7
|
58.5
|
1.0
|
CB
|
A:ASP980
|
4.7
|
64.0
|
1.0
|
N
|
A:ASP983
|
4.7
|
71.5
|
1.0
|
N
|
A:PHE978
|
4.8
|
54.9
|
1.0
|
CA
|
A:ASP983
|
4.8
|
71.5
|
1.0
|
CB
|
C:ASN463
|
4.9
|
52.7
|
1.0
|
|
Calcium binding site 2 out
of 8 in 7pxh
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Calcium Binding Sites List in 7pxh
Calcium binding site 2 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_02.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_02_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1202
b:57.5
occ:1.00
|
O
|
A:GLY548
|
2.4
|
56.7
|
1.0
|
OD2
|
A:ASP381
|
2.4
|
64.7
|
1.0
|
O
|
A:GLN616
|
2.5
|
61.7
|
1.0
|
O
|
A:ARG528
|
2.5
|
61.0
|
1.0
|
OE2
|
A:GLU550
|
2.5
|
59.6
|
1.0
|
CD
|
A:GLU550
|
2.8
|
59.6
|
1.0
|
OE1
|
A:GLU550
|
2.9
|
59.6
|
1.0
|
CG
|
A:ASP381
|
3.3
|
64.7
|
1.0
|
C
|
A:GLY548
|
3.5
|
56.7
|
1.0
|
C
|
A:GLN616
|
3.6
|
61.7
|
1.0
|
C
|
A:ARG528
|
3.7
|
61.0
|
1.0
|
CG
|
A:GLU550
|
3.8
|
59.6
|
1.0
|
CB
|
A:ASP381
|
4.0
|
64.7
|
1.0
|
OD1
|
A:ASP381
|
4.0
|
64.7
|
1.0
|
OH
|
A:TYR552
|
4.2
|
61.6
|
1.0
|
CA
|
A:GLY548
|
4.2
|
56.7
|
1.0
|
N
|
A:ARG528
|
4.2
|
61.0
|
1.0
|
CA
|
A:GLN616
|
4.3
|
61.7
|
1.0
|
N
|
A:MET549
|
4.5
|
59.5
|
1.0
|
CA
|
A:ARG528
|
4.5
|
61.0
|
1.0
|
N
|
A:SER529
|
4.6
|
70.2
|
1.0
|
CB
|
A:GLU550
|
4.6
|
59.6
|
1.0
|
CA
|
A:SER529
|
4.7
|
70.2
|
1.0
|
N
|
A:SER617
|
4.7
|
64.6
|
1.0
|
CA
|
A:MET549
|
4.7
|
59.5
|
1.0
|
OE1
|
A:GLN616
|
4.8
|
61.7
|
1.0
|
N
|
A:GLU550
|
4.9
|
59.6
|
1.0
|
C
|
A:MET549
|
4.9
|
59.5
|
1.0
|
O
|
A:ALA615
|
4.9
|
59.1
|
1.0
|
CA
|
A:SER617
|
4.9
|
64.6
|
1.0
|
|
Calcium binding site 3 out
of 8 in 7pxh
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Calcium Binding Sites List in 7pxh
Calcium binding site 3 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_03.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_03_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1201
b:60.2
occ:1.00
|
O
|
B:ASP980
|
2.5
|
64.4
|
1.0
|
OD1
|
B:ASP985
|
2.5
|
71.8
|
1.0
|
OD2
|
B:ASP985
|
2.5
|
71.8
|
1.0
|
OD1
|
B:ASP983
|
2.5
|
71.2
|
1.0
|
OD1
|
D:ASN463
|
2.5
|
53.2
|
1.0
|
O
|
B:GLN977
|
2.5
|
58.6
|
1.0
|
CG
|
B:ASP985
|
2.9
|
71.8
|
1.0
|
CG
|
B:ASP983
|
3.3
|
71.2
|
1.0
|
CG
|
D:ASN463
|
3.5
|
53.2
|
1.0
|
OD2
|
B:ASP983
|
3.5
|
71.2
|
1.0
|
C
|
B:ASP980
|
3.6
|
64.4
|
1.0
|
ND2
|
D:ASN463
|
3.7
|
53.2
|
1.0
|
C
|
B:GLN977
|
3.7
|
58.6
|
1.0
|
O
|
B:ASP983
|
3.7
|
71.2
|
1.0
|
CA
|
B:GLN977
|
4.3
|
58.6
|
1.0
|
N
|
B:GLN981
|
4.3
|
68.6
|
1.0
|
CA
|
B:GLN981
|
4.4
|
68.6
|
1.0
|
CB
|
B:ASP985
|
4.4
|
71.8
|
1.0
|
C
|
B:ASP983
|
4.4
|
71.2
|
1.0
|
CA
|
B:ASP980
|
4.5
|
64.4
|
1.0
|
O
|
B:GLN981
|
4.5
|
68.6
|
1.0
|
C
|
B:GLN981
|
4.6
|
68.6
|
1.0
|
CB
|
B:ASP983
|
4.6
|
71.2
|
1.0
|
N
|
B:ASP980
|
4.6
|
64.4
|
1.0
|
CB
|
B:GLN977
|
4.7
|
58.6
|
1.0
|
CB
|
B:ASP980
|
4.7
|
64.4
|
1.0
|
N
|
B:ASP983
|
4.7
|
71.2
|
1.0
|
N
|
B:PHE978
|
4.8
|
55.2
|
1.0
|
O
|
D:ASN463
|
4.8
|
53.2
|
1.0
|
CA
|
B:ASP983
|
4.8
|
71.2
|
1.0
|
CB
|
D:ASN463
|
4.9
|
53.2
|
1.0
|
|
Calcium binding site 4 out
of 8 in 7pxh
Go back to
Calcium Binding Sites List in 7pxh
Calcium binding site 4 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_04.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_04_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1202
b:56.4
occ:1.00
|
O
|
B:GLY548
|
2.4
|
57.1
|
1.0
|
OD2
|
B:ASP381
|
2.4
|
64.4
|
1.0
|
O
|
B:GLN616
|
2.5
|
62.0
|
1.0
|
O
|
B:ARG528
|
2.5
|
60.6
|
1.0
|
OE2
|
B:GLU550
|
2.5
|
60.0
|
1.0
|
CD
|
B:GLU550
|
2.8
|
60.0
|
1.0
|
OE1
|
B:GLU550
|
2.9
|
60.0
|
1.0
|
CG
|
B:ASP381
|
3.3
|
64.4
|
1.0
|
C
|
B:GLY548
|
3.5
|
57.1
|
1.0
|
C
|
B:GLN616
|
3.6
|
62.0
|
1.0
|
C
|
B:ARG528
|
3.7
|
60.6
|
1.0
|
CG
|
B:GLU550
|
3.8
|
60.0
|
1.0
|
CB
|
B:ASP381
|
4.0
|
64.4
|
1.0
|
OD1
|
B:ASP381
|
4.0
|
64.4
|
1.0
|
OH
|
B:TYR552
|
4.2
|
62.0
|
1.0
|
CA
|
B:GLY548
|
4.2
|
57.1
|
1.0
|
N
|
B:ARG528
|
4.2
|
60.6
|
1.0
|
CA
|
B:GLN616
|
4.3
|
62.0
|
1.0
|
CA
|
B:ARG528
|
4.5
|
60.6
|
1.0
|
N
|
B:MET549
|
4.5
|
59.7
|
1.0
|
N
|
B:SER529
|
4.6
|
70.5
|
1.0
|
CB
|
B:GLU550
|
4.6
|
60.0
|
1.0
|
CA
|
B:SER529
|
4.7
|
70.5
|
1.0
|
N
|
B:SER617
|
4.7
|
65.1
|
1.0
|
CA
|
B:MET549
|
4.7
|
59.7
|
1.0
|
OE1
|
B:GLN616
|
4.8
|
62.0
|
1.0
|
N
|
B:GLU550
|
4.9
|
60.0
|
1.0
|
C
|
B:MET549
|
4.9
|
59.7
|
1.0
|
O
|
B:ALA615
|
4.9
|
59.6
|
1.0
|
CA
|
B:SER617
|
4.9
|
65.1
|
1.0
|
|
Calcium binding site 5 out
of 8 in 7pxh
Go back to
Calcium Binding Sites List in 7pxh
Calcium binding site 5 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_05.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_05_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca1201
b:62.6
occ:1.00
|
O
|
C:GLN977
|
2.5
|
58.4
|
1.0
|
OD1
|
C:ASP983
|
2.5
|
73.3
|
1.0
|
O
|
C:ASP980
|
2.6
|
64.2
|
1.0
|
OD1
|
C:ASP985
|
2.6
|
72.3
|
1.0
|
OD2
|
C:ASP983
|
2.9
|
73.3
|
1.0
|
CG
|
C:ASP983
|
3.0
|
73.3
|
1.0
|
OD2
|
C:ASP985
|
3.0
|
72.3
|
1.0
|
OD1
|
B:ASN463
|
3.2
|
52.8
|
1.0
|
CG
|
C:ASP985
|
3.2
|
72.3
|
1.0
|
C
|
C:ASP980
|
3.4
|
64.2
|
1.0
|
C
|
C:GLN977
|
3.5
|
58.4
|
1.0
|
CA
|
C:GLN977
|
4.0
|
58.4
|
1.0
|
CB
|
C:ASP980
|
4.0
|
64.2
|
1.0
|
CA
|
C:ASP980
|
4.0
|
64.2
|
1.0
|
O
|
C:ASP983
|
4.1
|
73.3
|
1.0
|
CG
|
B:ASN463
|
4.1
|
52.8
|
1.0
|
N
|
C:ASP980
|
4.1
|
64.2
|
1.0
|
N
|
C:GLN981
|
4.3
|
67.8
|
1.0
|
ND2
|
B:ASN463
|
4.3
|
52.8
|
1.0
|
CB
|
C:ASP983
|
4.4
|
73.3
|
1.0
|
C
|
C:ASP983
|
4.6
|
73.3
|
1.0
|
CB
|
C:GLN977
|
4.6
|
58.4
|
1.0
|
CA
|
C:GLN981
|
4.6
|
67.8
|
1.0
|
N
|
C:PHE978
|
4.6
|
55.2
|
1.0
|
CB
|
C:ASP985
|
4.7
|
72.3
|
1.0
|
O
|
C:VAL976
|
4.8
|
59.1
|
1.0
|
N
|
C:ASP983
|
4.8
|
73.3
|
1.0
|
C
|
C:GLN981
|
4.8
|
67.8
|
1.0
|
CA
|
C:ASP983
|
4.8
|
73.3
|
1.0
|
O
|
C:GLN981
|
4.9
|
67.8
|
1.0
|
|
Calcium binding site 6 out
of 8 in 7pxh
Go back to
Calcium Binding Sites List in 7pxh
Calcium binding site 6 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_06.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_06_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca1202
b:56.3
occ:1.00
|
O
|
C:GLN616
|
2.5
|
59.7
|
1.0
|
O
|
C:ARG528
|
2.5
|
61.9
|
1.0
|
OE2
|
C:GLU550
|
2.6
|
58.8
|
1.0
|
OE1
|
C:GLU550
|
2.6
|
58.8
|
1.0
|
O
|
C:GLY548
|
2.6
|
55.7
|
1.0
|
OD2
|
C:ASP381
|
2.7
|
62.3
|
1.0
|
CD
|
C:GLU550
|
2.9
|
58.8
|
1.0
|
C
|
C:GLY548
|
3.6
|
55.7
|
1.0
|
CG
|
C:ASP381
|
3.6
|
62.3
|
1.0
|
C
|
C:GLN616
|
3.6
|
59.7
|
1.0
|
C
|
C:ARG528
|
3.6
|
61.9
|
1.0
|
CA
|
C:GLY548
|
4.1
|
55.7
|
1.0
|
N
|
C:ARG528
|
4.2
|
61.9
|
1.0
|
CB
|
C:ASP381
|
4.2
|
62.3
|
1.0
|
CA
|
C:GLN616
|
4.2
|
59.7
|
1.0
|
OE1
|
C:GLN616
|
4.4
|
59.7
|
1.0
|
CG
|
C:GLU550
|
4.4
|
58.8
|
1.0
|
CA
|
C:ARG528
|
4.5
|
61.9
|
1.0
|
OD1
|
C:ASP381
|
4.5
|
62.3
|
1.0
|
N
|
C:SER529
|
4.5
|
71.8
|
1.0
|
CA
|
C:SER529
|
4.6
|
71.8
|
1.0
|
OH
|
C:TYR552
|
4.6
|
59.9
|
1.0
|
N
|
C:MET549
|
4.7
|
59.1
|
1.0
|
N
|
C:SER617
|
4.7
|
63.2
|
1.0
|
O
|
C:ALA615
|
4.9
|
58.2
|
1.0
|
CB
|
C:GLN616
|
5.0
|
59.7
|
1.0
|
CA
|
C:SER617
|
5.0
|
63.2
|
1.0
|
|
Calcium binding site 7 out
of 8 in 7pxh
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Calcium Binding Sites List in 7pxh
Calcium binding site 7 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_07.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_07_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca1201
b:66.5
occ:1.00
|
O
|
D:GLN977
|
2.5
|
59.3
|
1.0
|
OD1
|
D:ASP983
|
2.5
|
74.0
|
1.0
|
O
|
D:ASP980
|
2.6
|
65.3
|
1.0
|
OD1
|
D:ASP985
|
2.6
|
73.1
|
1.0
|
OD2
|
D:ASP983
|
2.9
|
74.0
|
1.0
|
CG
|
D:ASP983
|
3.0
|
74.0
|
1.0
|
OD2
|
D:ASP985
|
3.0
|
73.1
|
1.0
|
CG
|
D:ASP985
|
3.2
|
73.1
|
1.0
|
OD1
|
A:ASN463
|
3.4
|
53.1
|
1.0
|
C
|
D:ASP980
|
3.4
|
65.3
|
1.0
|
C
|
D:GLN977
|
3.5
|
59.3
|
1.0
|
CA
|
D:GLN977
|
4.0
|
59.3
|
1.0
|
CB
|
D:ASP980
|
4.0
|
65.3
|
1.0
|
CA
|
D:ASP980
|
4.0
|
65.3
|
1.0
|
O
|
D:ASP983
|
4.1
|
74.0
|
1.0
|
N
|
D:ASP980
|
4.1
|
65.3
|
1.0
|
CG
|
A:ASN463
|
4.3
|
53.1
|
1.0
|
N
|
D:GLN981
|
4.3
|
69.4
|
1.0
|
CB
|
D:ASP983
|
4.4
|
74.0
|
1.0
|
ND2
|
A:ASN463
|
4.4
|
53.1
|
1.0
|
C
|
D:ASP983
|
4.6
|
74.0
|
1.0
|
CB
|
D:GLN977
|
4.6
|
59.3
|
1.0
|
CA
|
D:GLN981
|
4.6
|
69.4
|
1.0
|
N
|
D:PHE978
|
4.6
|
55.9
|
1.0
|
CB
|
D:ASP985
|
4.7
|
73.1
|
1.0
|
O
|
D:VAL976
|
4.8
|
59.4
|
1.0
|
N
|
D:ASP983
|
4.8
|
74.0
|
1.0
|
C
|
D:GLN981
|
4.8
|
69.4
|
1.0
|
CA
|
D:ASP983
|
4.8
|
74.0
|
1.0
|
O
|
D:GLN981
|
4.9
|
69.4
|
1.0
|
|
Calcium binding site 8 out
of 8 in 7pxh
Go back to
Calcium Binding Sites List in 7pxh
Calcium binding site 8 out
of 8 in the Emodepside-Bound Drosophila Slo Channel
![](/pictures/CA/pdb/px/7pxh-CA-sphere_08.jpg) Mono view
![](/pictures/CA/pdb/px/7pxh-CA-sphere_08_stereo.jpg) Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Emodepside-Bound Drosophila Slo Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca1202
b:56.1
occ:1.00
|
O
|
D:GLN616
|
2.5
|
60.2
|
1.0
|
O
|
D:ARG528
|
2.5
|
62.3
|
1.0
|
OE2
|
D:GLU550
|
2.6
|
59.6
|
1.0
|
OE1
|
D:GLU550
|
2.6
|
59.6
|
1.0
|
O
|
D:GLY548
|
2.6
|
56.5
|
1.0
|
OD2
|
D:ASP381
|
2.7
|
63.3
|
1.0
|
CD
|
D:GLU550
|
2.9
|
59.6
|
1.0
|
C
|
D:GLY548
|
3.6
|
56.5
|
1.0
|
CG
|
D:ASP381
|
3.6
|
63.3
|
1.0
|
C
|
D:GLN616
|
3.6
|
60.2
|
1.0
|
C
|
D:ARG528
|
3.6
|
62.3
|
1.0
|
CA
|
D:GLY548
|
4.1
|
56.5
|
1.0
|
N
|
D:ARG528
|
4.2
|
62.3
|
1.0
|
CB
|
D:ASP381
|
4.2
|
63.3
|
1.0
|
CA
|
D:GLN616
|
4.2
|
60.2
|
1.0
|
OE1
|
D:GLN616
|
4.4
|
60.2
|
1.0
|
CG
|
D:GLU550
|
4.4
|
59.6
|
1.0
|
CA
|
D:ARG528
|
4.5
|
62.3
|
1.0
|
OD1
|
D:ASP381
|
4.5
|
63.3
|
1.0
|
N
|
D:SER529
|
4.5
|
72.0
|
1.0
|
CA
|
D:SER529
|
4.6
|
72.0
|
1.0
|
OH
|
D:TYR552
|
4.6
|
60.7
|
1.0
|
N
|
D:MET549
|
4.7
|
60.1
|
1.0
|
N
|
D:SER617
|
4.7
|
64.0
|
1.0
|
O
|
D:ALA615
|
4.9
|
58.9
|
1.0
|
CB
|
D:GLN616
|
5.0
|
60.2
|
1.0
|
CA
|
D:SER617
|
5.0
|
64.0
|
1.0
|
|
Reference:
T.Raisch,
A.Brockmann,
U.Ebbinghaus-Kintscher,
J.Freigang,
O.Gutbrod,
J.Kubicek,
B.Maertens,
O.Hofnagel,
S.Raunser.
Small Molecule Modulation of the Drosophila Slo Channel Elucidated By Cryo-Em To Be Published.
DOI: 10.1038/S41467-021-27435-W
Page generated: Fri Jul 19 03:20:18 2024
|