Calcium in PDB 6v38: Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Other elements in 6v38:
The structure of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel also contains other interesting chemical elements:
Calcium Binding Sites:
The binding sites of Calcium atom in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
(pdb code 6v38). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the
Cryo-Em Structure of CA2+-Bound HSSLO1 Channel, PDB code: 6v38:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Calcium binding site 1 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 1 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1102
b:0.8
occ:1.00
|
O
|
A:SER533
|
2.5
|
0.7
|
1.0
|
O
|
A:ARG514
|
2.5
|
0.3
|
1.0
|
O
|
A:SER600
|
2.5
|
0.2
|
1.0
|
OD2
|
A:ASP367
|
2.6
|
0.5
|
1.0
|
OE1
|
A:GLU535
|
2.6
|
0.9
|
1.0
|
OE2
|
A:GLU535
|
2.8
|
0.9
|
1.0
|
CG
|
A:ASP367
|
3.0
|
0.5
|
1.0
|
CD
|
A:GLU535
|
3.1
|
0.9
|
1.0
|
OD1
|
A:ASP367
|
3.4
|
0.5
|
1.0
|
C
|
A:SER600
|
3.5
|
0.2
|
1.0
|
C
|
A:ARG514
|
3.5
|
0.3
|
1.0
|
C
|
A:SER533
|
3.6
|
0.7
|
1.0
|
CB
|
A:ASP367
|
3.8
|
0.5
|
1.0
|
CA
|
A:SER600
|
4.0
|
0.2
|
1.0
|
CA
|
A:SER533
|
4.1
|
0.7
|
1.0
|
CB
|
A:SER600
|
4.2
|
0.2
|
1.0
|
N
|
A:ARG514
|
4.2
|
0.3
|
1.0
|
N
|
A:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
A:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
A:ARG514
|
4.4
|
0.3
|
1.0
|
CB
|
A:SER533
|
4.5
|
0.7
|
1.0
|
N
|
A:ASP601
|
4.5
|
1.0
|
1.0
|
CG
|
A:GLU535
|
4.6
|
0.9
|
1.0
|
OG
|
A:SER600
|
4.6
|
0.2
|
1.0
|
OH
|
A:TYR537
|
4.6
|
0.4
|
1.0
|
N
|
A:ASN534
|
4.6
|
0.8
|
1.0
|
C
|
A:SER515
|
4.7
|
0.4
|
1.0
|
CA
|
A:ASP601
|
4.9
|
1.0
|
1.0
|
CA
|
A:ASN534
|
4.9
|
0.8
|
1.0
|
OG
|
A:SER533
|
5.0
|
0.7
|
1.0
|
|
Calcium binding site 2 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 2 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca1103
b:0.5
occ:1.00
|
O
|
A:ASP892
|
2.5
|
0.5
|
1.0
|
O
|
A:GLN889
|
2.5
|
95.4
|
1.0
|
OD1
|
A:ASP897
|
2.5
|
0.3
|
1.0
|
OD1
|
A:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
A:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
A:ASP897
|
2.5
|
0.3
|
1.0
|
CG
|
A:ASP895
|
2.8
|
0.0
|
1.0
|
CG
|
A:ASP897
|
2.8
|
0.3
|
1.0
|
OD1
|
D:ASN449
|
3.0
|
0.2
|
1.0
|
C
|
A:ASP892
|
3.0
|
0.5
|
1.0
|
C
|
A:GLN889
|
3.5
|
95.4
|
1.0
|
N
|
A:GLN893
|
3.7
|
0.2
|
1.0
|
CA
|
A:ASP892
|
3.7
|
0.5
|
1.0
|
N
|
A:ASP892
|
3.8
|
0.5
|
1.0
|
CG
|
D:ASN449
|
3.9
|
0.2
|
1.0
|
CB
|
A:ASP892
|
4.0
|
0.5
|
1.0
|
CA
|
A:GLN889
|
4.0
|
95.4
|
1.0
|
ND2
|
D:ASN449
|
4.0
|
0.2
|
1.0
|
CA
|
A:GLN893
|
4.0
|
0.2
|
1.0
|
CB
|
A:ASP895
|
4.3
|
0.0
|
1.0
|
CB
|
A:ASP897
|
4.3
|
0.3
|
1.0
|
C
|
A:GLN893
|
4.5
|
0.2
|
1.0
|
CB
|
A:GLN889
|
4.5
|
95.4
|
1.0
|
O
|
A:ASP895
|
4.6
|
0.0
|
1.0
|
N
|
A:PHE890
|
4.7
|
95.3
|
1.0
|
O
|
A:GLN893
|
4.7
|
0.2
|
1.0
|
N
|
A:LEU891
|
4.9
|
96.3
|
1.0
|
N
|
A:ASP895
|
4.9
|
0.0
|
1.0
|
C
|
A:PHE890
|
5.0
|
95.3
|
1.0
|
C
|
A:LEU891
|
5.0
|
96.3
|
1.0
|
|
Calcium binding site 3 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 3 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1105
b:0.8
occ:1.00
|
O
|
B:SER533
|
2.5
|
0.7
|
1.0
|
O
|
B:ARG514
|
2.5
|
0.3
|
1.0
|
O
|
B:SER600
|
2.5
|
0.2
|
1.0
|
OD2
|
B:ASP367
|
2.6
|
0.5
|
1.0
|
OE1
|
B:GLU535
|
2.6
|
0.9
|
1.0
|
OE2
|
B:GLU535
|
2.8
|
0.9
|
1.0
|
CG
|
B:ASP367
|
3.0
|
0.5
|
1.0
|
CD
|
B:GLU535
|
3.1
|
0.9
|
1.0
|
OD1
|
B:ASP367
|
3.4
|
0.5
|
1.0
|
C
|
B:SER600
|
3.5
|
0.2
|
1.0
|
C
|
B:ARG514
|
3.5
|
0.3
|
1.0
|
C
|
B:SER533
|
3.6
|
0.7
|
1.0
|
CB
|
B:ASP367
|
3.8
|
0.5
|
1.0
|
CA
|
B:SER600
|
4.0
|
0.2
|
1.0
|
CA
|
B:SER533
|
4.1
|
0.7
|
1.0
|
CB
|
B:SER600
|
4.2
|
0.2
|
1.0
|
N
|
B:ARG514
|
4.2
|
0.3
|
1.0
|
N
|
B:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
B:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
B:ARG514
|
4.4
|
0.3
|
1.0
|
CB
|
B:SER533
|
4.5
|
0.7
|
1.0
|
N
|
B:ASP601
|
4.5
|
1.0
|
1.0
|
CG
|
B:GLU535
|
4.6
|
0.9
|
1.0
|
OG
|
B:SER600
|
4.6
|
0.2
|
1.0
|
OH
|
B:TYR537
|
4.6
|
0.4
|
1.0
|
N
|
B:ASN534
|
4.6
|
0.8
|
1.0
|
C
|
B:SER515
|
4.7
|
0.4
|
1.0
|
CA
|
B:ASP601
|
4.9
|
1.0
|
1.0
|
CA
|
B:ASN534
|
4.9
|
0.8
|
1.0
|
OG
|
B:SER533
|
5.0
|
0.7
|
1.0
|
|
Calcium binding site 4 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 4 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca1106
b:0.5
occ:1.00
|
O
|
B:ASP892
|
2.5
|
0.5
|
1.0
|
O
|
B:GLN889
|
2.5
|
95.4
|
1.0
|
OD1
|
B:ASP897
|
2.5
|
0.3
|
1.0
|
OD1
|
B:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
B:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
B:ASP897
|
2.5
|
0.3
|
1.0
|
CG
|
B:ASP895
|
2.8
|
0.0
|
1.0
|
CG
|
B:ASP897
|
2.8
|
0.3
|
1.0
|
OD1
|
A:ASN449
|
2.8
|
0.2
|
1.0
|
C
|
B:ASP892
|
3.0
|
0.5
|
1.0
|
C
|
B:GLN889
|
3.5
|
95.4
|
1.0
|
CG
|
A:ASN449
|
3.7
|
0.2
|
1.0
|
N
|
B:GLN893
|
3.7
|
0.2
|
1.0
|
CA
|
B:ASP892
|
3.7
|
0.5
|
1.0
|
N
|
B:ASP892
|
3.8
|
0.5
|
1.0
|
ND2
|
A:ASN449
|
3.8
|
0.2
|
1.0
|
CB
|
B:ASP892
|
4.0
|
0.5
|
1.0
|
CA
|
B:GLN889
|
4.0
|
95.4
|
1.0
|
CA
|
B:GLN893
|
4.0
|
0.2
|
1.0
|
CB
|
B:ASP895
|
4.3
|
0.0
|
1.0
|
CB
|
B:ASP897
|
4.3
|
0.3
|
1.0
|
C
|
B:GLN893
|
4.5
|
0.2
|
1.0
|
CB
|
B:GLN889
|
4.5
|
95.4
|
1.0
|
O
|
B:ASP895
|
4.6
|
0.0
|
1.0
|
N
|
B:PHE890
|
4.7
|
95.3
|
1.0
|
O
|
B:GLN893
|
4.7
|
0.2
|
1.0
|
N
|
B:LEU891
|
4.9
|
96.3
|
1.0
|
N
|
B:ASP895
|
4.9
|
0.0
|
1.0
|
C
|
B:PHE890
|
5.0
|
95.3
|
1.0
|
C
|
B:LEU891
|
5.0
|
96.3
|
1.0
|
|
Calcium binding site 5 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 5 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca1103
b:0.8
occ:1.00
|
O
|
C:SER533
|
2.5
|
0.7
|
1.0
|
O
|
C:ARG514
|
2.5
|
0.3
|
1.0
|
O
|
C:SER600
|
2.5
|
0.2
|
1.0
|
OD2
|
C:ASP367
|
2.6
|
0.5
|
1.0
|
OE1
|
C:GLU535
|
2.6
|
0.9
|
1.0
|
OE2
|
C:GLU535
|
2.8
|
0.9
|
1.0
|
CG
|
C:ASP367
|
3.0
|
0.5
|
1.0
|
CD
|
C:GLU535
|
3.1
|
0.9
|
1.0
|
OD1
|
C:ASP367
|
3.4
|
0.5
|
1.0
|
C
|
C:SER600
|
3.5
|
0.2
|
1.0
|
C
|
C:ARG514
|
3.5
|
0.3
|
1.0
|
C
|
C:SER533
|
3.6
|
0.7
|
1.0
|
CB
|
C:ASP367
|
3.8
|
0.5
|
1.0
|
CA
|
C:SER600
|
4.0
|
0.2
|
1.0
|
CA
|
C:SER533
|
4.1
|
0.7
|
1.0
|
CB
|
C:SER600
|
4.2
|
0.2
|
1.0
|
N
|
C:ARG514
|
4.2
|
0.3
|
1.0
|
N
|
C:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
C:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
C:ARG514
|
4.4
|
0.3
|
1.0
|
CB
|
C:SER533
|
4.5
|
0.7
|
1.0
|
N
|
C:ASP601
|
4.5
|
1.0
|
1.0
|
CG
|
C:GLU535
|
4.6
|
0.9
|
1.0
|
OG
|
C:SER600
|
4.6
|
0.2
|
1.0
|
OH
|
C:TYR537
|
4.6
|
0.4
|
1.0
|
N
|
C:ASN534
|
4.6
|
0.8
|
1.0
|
C
|
C:SER515
|
4.7
|
0.4
|
1.0
|
CA
|
C:ASP601
|
4.9
|
1.0
|
1.0
|
CA
|
C:ASN534
|
4.9
|
0.8
|
1.0
|
OG
|
C:SER533
|
5.0
|
0.7
|
1.0
|
|
Calcium binding site 6 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 6 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca1104
b:0.5
occ:1.00
|
O
|
C:ASP892
|
2.5
|
0.5
|
1.0
|
O
|
C:GLN889
|
2.5
|
95.4
|
1.0
|
OD1
|
C:ASP897
|
2.5
|
0.3
|
1.0
|
OD1
|
C:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
C:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
C:ASP897
|
2.5
|
0.3
|
1.0
|
CG
|
C:ASP895
|
2.8
|
0.0
|
1.0
|
CG
|
C:ASP897
|
2.8
|
0.3
|
1.0
|
C
|
C:ASP892
|
3.0
|
0.5
|
1.0
|
OD1
|
B:ASN449
|
3.1
|
0.2
|
1.0
|
C
|
C:GLN889
|
3.5
|
95.4
|
1.0
|
N
|
C:GLN893
|
3.7
|
0.2
|
1.0
|
CA
|
C:ASP892
|
3.7
|
0.5
|
1.0
|
N
|
C:ASP892
|
3.8
|
0.5
|
1.0
|
CG
|
B:ASN449
|
3.9
|
0.2
|
1.0
|
CB
|
C:ASP892
|
4.0
|
0.5
|
1.0
|
CA
|
C:GLN889
|
4.0
|
95.4
|
1.0
|
ND2
|
B:ASN449
|
4.0
|
0.2
|
1.0
|
CA
|
C:GLN893
|
4.0
|
0.2
|
1.0
|
CB
|
C:ASP895
|
4.3
|
0.0
|
1.0
|
CB
|
C:ASP897
|
4.3
|
0.3
|
1.0
|
C
|
C:GLN893
|
4.5
|
0.2
|
1.0
|
CB
|
C:GLN889
|
4.5
|
95.4
|
1.0
|
O
|
C:ASP895
|
4.6
|
0.0
|
1.0
|
N
|
C:PHE890
|
4.7
|
95.3
|
1.0
|
O
|
C:GLN893
|
4.7
|
0.2
|
1.0
|
N
|
C:LEU891
|
4.9
|
96.3
|
1.0
|
N
|
C:ASP895
|
4.9
|
0.0
|
1.0
|
C
|
C:PHE890
|
5.0
|
95.3
|
1.0
|
C
|
C:LEU891
|
5.0
|
96.3
|
1.0
|
|
Calcium binding site 7 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 7 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca1104
b:0.8
occ:1.00
|
O
|
D:SER533
|
2.5
|
0.7
|
1.0
|
O
|
D:ARG514
|
2.5
|
0.3
|
1.0
|
O
|
D:SER600
|
2.5
|
0.2
|
1.0
|
OD2
|
D:ASP367
|
2.6
|
0.5
|
1.0
|
OE1
|
D:GLU535
|
2.6
|
0.9
|
1.0
|
OE2
|
D:GLU535
|
2.8
|
0.9
|
1.0
|
CG
|
D:ASP367
|
3.0
|
0.5
|
1.0
|
CD
|
D:GLU535
|
3.1
|
0.9
|
1.0
|
OD1
|
D:ASP367
|
3.4
|
0.5
|
1.0
|
C
|
D:SER600
|
3.5
|
0.2
|
1.0
|
C
|
D:ARG514
|
3.5
|
0.3
|
1.0
|
C
|
D:SER533
|
3.6
|
0.7
|
1.0
|
CB
|
D:ASP367
|
3.8
|
0.5
|
1.0
|
CA
|
D:SER600
|
4.0
|
0.2
|
1.0
|
CA
|
D:SER533
|
4.1
|
0.7
|
1.0
|
CB
|
D:SER600
|
4.2
|
0.2
|
1.0
|
N
|
D:ARG514
|
4.2
|
0.3
|
1.0
|
N
|
D:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
D:SER515
|
4.2
|
0.4
|
1.0
|
CA
|
D:ARG514
|
4.4
|
0.3
|
1.0
|
CB
|
D:SER533
|
4.5
|
0.7
|
1.0
|
N
|
D:ASP601
|
4.5
|
1.0
|
1.0
|
CG
|
D:GLU535
|
4.6
|
0.9
|
1.0
|
OG
|
D:SER600
|
4.6
|
0.2
|
1.0
|
OH
|
D:TYR537
|
4.6
|
0.4
|
1.0
|
N
|
D:ASN534
|
4.6
|
0.8
|
1.0
|
C
|
D:SER515
|
4.7
|
0.4
|
1.0
|
CA
|
D:ASP601
|
4.9
|
1.0
|
1.0
|
CA
|
D:ASN534
|
4.9
|
0.8
|
1.0
|
OG
|
D:SER533
|
5.0
|
0.7
|
1.0
|
|
Calcium binding site 8 out
of 8 in 6v38
Go back to
Calcium Binding Sites List in 6v38
Calcium binding site 8 out
of 8 in the Cryo-Em Structure of CA2+-Bound HSSLO1 Channel
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Cryo-Em Structure of CA2+-Bound HSSLO1 Channel within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Ca1105
b:0.5
occ:1.00
|
O
|
D:ASP892
|
2.5
|
0.5
|
1.0
|
O
|
D:GLN889
|
2.5
|
95.4
|
1.0
|
OD1
|
D:ASP897
|
2.5
|
0.3
|
1.0
|
OD1
|
D:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
D:ASP895
|
2.5
|
0.0
|
1.0
|
OD2
|
D:ASP897
|
2.5
|
0.3
|
1.0
|
CG
|
D:ASP895
|
2.8
|
0.0
|
1.0
|
CG
|
D:ASP897
|
2.8
|
0.3
|
1.0
|
C
|
D:ASP892
|
3.0
|
0.5
|
1.0
|
OD1
|
C:ASN449
|
3.0
|
0.2
|
1.0
|
C
|
D:GLN889
|
3.5
|
95.4
|
1.0
|
N
|
D:GLN893
|
3.7
|
0.2
|
1.0
|
CA
|
D:ASP892
|
3.7
|
0.5
|
1.0
|
N
|
D:ASP892
|
3.8
|
0.5
|
1.0
|
CG
|
C:ASN449
|
3.9
|
0.2
|
1.0
|
CB
|
D:ASP892
|
4.0
|
0.5
|
1.0
|
CA
|
D:GLN889
|
4.0
|
95.4
|
1.0
|
ND2
|
C:ASN449
|
4.0
|
0.2
|
1.0
|
CA
|
D:GLN893
|
4.0
|
0.2
|
1.0
|
CB
|
D:ASP895
|
4.3
|
0.0
|
1.0
|
CB
|
D:ASP897
|
4.3
|
0.3
|
1.0
|
C
|
D:GLN893
|
4.5
|
0.2
|
1.0
|
CB
|
D:GLN889
|
4.5
|
95.4
|
1.0
|
O
|
D:ASP895
|
4.6
|
0.0
|
1.0
|
N
|
D:PHE890
|
4.7
|
95.3
|
1.0
|
O
|
D:GLN893
|
4.7
|
0.2
|
1.0
|
N
|
D:LEU891
|
4.9
|
96.3
|
1.0
|
N
|
D:ASP895
|
4.9
|
0.0
|
1.0
|
C
|
D:PHE890
|
5.0
|
95.3
|
1.0
|
C
|
D:LEU891
|
5.0
|
96.3
|
1.0
|
|
Reference:
X.Tao,
R.Mackinnon.
Molecular Structures of the Human SLO1 K+Channel in Complex with Beta 4. Elife V. 8 2019.
ISSN: ESSN 2050-084X
PubMed: 31815672
DOI: 10.7554/ELIFE.51409
Page generated: Tue Jul 16 16:29:44 2024
|