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Calcium in PDB 9dkl: CA2+ Bound Aplysia SLO1 F304A

Other elements in 9dkl:

The structure of CA2+ Bound Aplysia SLO1 F304A also contains other interesting chemical elements:

Potassium (K) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the CA2+ Bound Aplysia SLO1 F304A (pdb code 9dkl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the CA2+ Bound Aplysia SLO1 F304A, PDB code: 9dkl:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 9dkl

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Calcium binding site 1 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1101

b:125.1
occ:1.00
OD2 A:ASP356 2.3 120.2 1.0
O A:GLY523 2.3 118.9 1.0
O A:GLU591 2.3 123.5 1.0
OE2 A:GLU525 2.3 126.0 1.0
OE1 A:GLU525 2.4 122.1 1.0
OE2 A:GLU591 2.4 136.3 1.0
O A:ARG503 2.6 108.2 1.0
CD A:GLU525 2.7 119.1 1.0
CD A:GLU591 3.1 134.7 1.0
CG A:ASP356 3.2 119.2 1.0
C A:GLY523 3.4 118.6 1.0
C A:GLU591 3.4 121.0 1.0
C A:ARG503 3.4 105.2 1.0
OE1 A:GLU591 3.5 131.6 1.0
CB A:ASP356 3.9 113.8 1.0
CA A:GLU591 4.0 116.5 1.0
N A:SER504 4.0 117.9 1.0
CA A:GLY523 4.1 120.6 1.0
CG A:GLU525 4.1 115.3 1.0
CG A:GLU591 4.1 131.6 1.0
OD1 A:ASP356 4.1 121.7 1.0
CA A:SER504 4.1 123.1 1.0
N A:ARG503 4.1 112.0 1.0
OH A:TYR527 4.3 124.0 1.0
CA A:ARG503 4.4 106.6 1.0
N A:MET524 4.4 118.8 1.0
N A:SER592 4.5 123.7 1.0
CA A:MET524 4.5 120.5 1.0
CB A:GLU591 4.6 122.8 1.0
CA A:SER592 4.7 122.4 1.0
C A:MET524 4.7 122.7 1.0
N A:GLU525 4.8 121.9 1.0
O A:ALA590 4.8 113.2 1.0
CB A:SER592 4.9 121.0 1.0
C A:SER504 5.0 124.6 1.0

Calcium binding site 2 out of 8 in 9dkl

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Calcium binding site 2 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1102

b:107.5
occ:1.00
O A:ASP902 2.3 125.8 1.0
OD2 A:ASP907 2.3 145.6 1.0
O A:GLN899 2.3 106.4 1.0
OD2 A:ASP905 2.3 141.1 1.0
OD1 A:ASP907 2.4 152.4 1.0
OD1 A:ASP905 2.4 140.9 1.0
OD1 D:ASN438 2.6 99.3 1.0
CG A:ASP907 2.7 149.2 1.0
CG A:ASP905 2.7 139.6 1.0
C A:ASP902 3.4 127.5 1.0
C A:GLN899 3.5 105.7 1.0
CG D:ASN438 3.6 101.8 1.0
ND2 D:ASN438 3.8 100.1 1.0
CA A:GLN899 4.2 98.9 1.0
N A:GLN903 4.2 132.8 1.0
CB A:ASP907 4.2 147.2 1.0
CB A:ASP905 4.3 138.4 1.0
N A:ASP902 4.3 124.0 1.0
CA A:ASP902 4.3 124.8 1.0
CA A:GLN903 4.4 130.4 1.0
N A:PHE900 4.6 98.2 1.0
CB A:ASP902 4.7 127.4 1.0
CB A:GLN899 4.8 98.5 1.0
CA A:PHE900 4.9 92.0 1.0
N A:ASP907 4.9 146.1 1.0
CB D:ASN438 4.9 95.3 1.0
CA A:ASP907 5.0 145.2 1.0
O D:ASN438 5.0 101.6 1.0

Calcium binding site 3 out of 8 in 9dkl

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Calcium binding site 3 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1101

b:125.1
occ:1.00
OD2 B:ASP356 2.3 120.2 1.0
O B:GLY523 2.3 118.9 1.0
O B:GLU591 2.3 123.5 1.0
OE2 B:GLU525 2.3 126.0 1.0
OE1 B:GLU525 2.4 122.1 1.0
OE2 B:GLU591 2.4 136.3 1.0
O B:ARG503 2.6 108.2 1.0
CD B:GLU525 2.7 119.1 1.0
CD B:GLU591 3.1 134.7 1.0
CG B:ASP356 3.2 119.2 1.0
C B:GLY523 3.4 118.6 1.0
C B:GLU591 3.4 121.0 1.0
C B:ARG503 3.4 105.2 1.0
OE1 B:GLU591 3.5 131.6 1.0
CB B:ASP356 3.9 113.8 1.0
CA B:GLU591 4.0 116.5 1.0
N B:SER504 4.0 117.9 1.0
CG B:GLU525 4.1 115.3 1.0
CA B:GLY523 4.1 120.6 1.0
CG B:GLU591 4.1 131.6 1.0
OD1 B:ASP356 4.1 121.7 1.0
CA B:SER504 4.1 123.1 1.0
N B:ARG503 4.1 112.0 1.0
OH B:TYR527 4.3 124.0 1.0
CA B:ARG503 4.4 106.6 1.0
N B:MET524 4.4 118.8 1.0
N B:SER592 4.5 123.7 1.0
CA B:MET524 4.5 120.5 1.0
CB B:GLU591 4.6 122.8 1.0
CA B:SER592 4.7 122.4 1.0
C B:MET524 4.7 122.7 1.0
N B:GLU525 4.8 121.9 1.0
O B:ALA590 4.8 113.2 1.0
CB B:SER592 4.9 121.0 1.0
C B:SER504 5.0 124.6 1.0

Calcium binding site 4 out of 8 in 9dkl

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Calcium binding site 4 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1102

b:107.5
occ:1.00
O B:ASP902 2.3 125.8 1.0
OD2 B:ASP907 2.3 145.6 1.0
O B:GLN899 2.3 106.4 1.0
OD2 B:ASP905 2.3 141.1 1.0
OD1 B:ASP907 2.4 152.4 1.0
OD1 B:ASP905 2.4 140.9 1.0
OD1 A:ASN438 2.6 99.3 1.0
CG B:ASP907 2.7 149.2 1.0
CG B:ASP905 2.7 139.6 1.0
C B:ASP902 3.4 127.5 1.0
C B:GLN899 3.5 105.7 1.0
CG A:ASN438 3.6 101.8 1.0
ND2 A:ASN438 3.9 100.1 1.0
CA B:GLN899 4.2 98.9 1.0
N B:GLN903 4.2 132.8 1.0
CB B:ASP907 4.2 147.2 1.0
CB B:ASP905 4.3 138.4 1.0
N B:ASP902 4.3 124.0 1.0
CA B:ASP902 4.3 124.8 1.0
CA B:GLN903 4.4 130.4 1.0
N B:PHE900 4.6 98.2 1.0
CB B:ASP902 4.7 127.4 1.0
CB B:GLN899 4.8 98.5 1.0
CA B:PHE900 4.9 92.0 1.0
N B:ASP907 4.9 146.1 1.0
CA B:ASP907 5.0 145.2 1.0

Calcium binding site 5 out of 8 in 9dkl

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Calcium binding site 5 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1103

b:125.1
occ:1.00
OD2 C:ASP356 2.3 120.2 1.0
O C:GLY523 2.3 118.9 1.0
O C:GLU591 2.3 123.5 1.0
OE2 C:GLU525 2.3 126.0 1.0
OE1 C:GLU525 2.4 122.1 1.0
OE2 C:GLU591 2.4 136.3 1.0
O C:ARG503 2.6 108.2 1.0
CD C:GLU525 2.6 119.1 1.0
CD C:GLU591 3.1 134.7 1.0
CG C:ASP356 3.2 119.2 1.0
C C:GLY523 3.4 118.6 1.0
C C:GLU591 3.4 121.0 1.0
C C:ARG503 3.4 105.2 1.0
OE1 C:GLU591 3.5 131.6 1.0
CB C:ASP356 3.9 113.8 1.0
CA C:GLU591 4.0 116.5 1.0
N C:SER504 4.0 117.9 1.0
CG C:GLU525 4.1 115.3 1.0
CA C:GLY523 4.1 120.6 1.0
CG C:GLU591 4.1 131.6 1.0
OD1 C:ASP356 4.1 121.7 1.0
CA C:SER504 4.1 123.1 1.0
N C:ARG503 4.1 112.0 1.0
OH C:TYR527 4.3 124.0 1.0
CA C:ARG503 4.4 106.6 1.0
N C:MET524 4.4 118.8 1.0
N C:SER592 4.5 123.7 1.0
CA C:MET524 4.5 120.5 1.0
CB C:GLU591 4.6 122.8 1.0
CA C:SER592 4.7 122.4 1.0
C C:MET524 4.7 122.7 1.0
N C:GLU525 4.8 121.9 1.0
O C:ALA590 4.8 113.2 1.0
CB C:SER592 4.9 121.0 1.0
C C:SER504 5.0 124.6 1.0

Calcium binding site 6 out of 8 in 9dkl

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Calcium binding site 6 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1104

b:107.5
occ:1.00
O C:ASP902 2.3 125.8 1.0
OD2 C:ASP907 2.3 145.6 1.0
O C:GLN899 2.3 106.4 1.0
OD2 C:ASP905 2.3 141.1 1.0
OD1 C:ASP907 2.4 152.4 1.0
OD1 C:ASP905 2.4 140.9 1.0
OD1 B:ASN438 2.6 99.3 1.0
CG C:ASP907 2.7 149.2 1.0
CG C:ASP905 2.7 139.6 1.0
C C:ASP902 3.4 127.5 1.0
C C:GLN899 3.5 105.7 1.0
CG B:ASN438 3.6 101.8 1.0
ND2 B:ASN438 3.9 100.1 1.0
CA C:GLN899 4.2 98.9 1.0
N C:GLN903 4.2 132.8 1.0
CB C:ASP907 4.2 147.2 1.0
CB C:ASP905 4.3 138.4 1.0
N C:ASP902 4.3 124.0 1.0
CA C:ASP902 4.3 124.8 1.0
CA C:GLN903 4.4 130.4 1.0
N C:PHE900 4.6 98.2 1.0
CB C:ASP902 4.7 127.4 1.0
CB C:GLN899 4.8 98.5 1.0
CA C:PHE900 4.9 92.0 1.0
N C:ASP907 4.9 146.1 1.0
CA C:ASP907 5.0 145.2 1.0

Calcium binding site 7 out of 8 in 9dkl

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Calcium binding site 7 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1101

b:125.1
occ:1.00
OD2 D:ASP356 2.3 120.2 1.0
O D:GLY523 2.3 118.9 1.0
O D:GLU591 2.3 123.5 1.0
OE2 D:GLU525 2.3 126.0 1.0
OE1 D:GLU525 2.4 122.1 1.0
OE2 D:GLU591 2.4 136.3 1.0
O D:ARG503 2.6 108.2 1.0
CD D:GLU525 2.7 119.1 1.0
CD D:GLU591 3.1 134.7 1.0
CG D:ASP356 3.2 119.2 1.0
C D:GLY523 3.4 118.6 1.0
C D:GLU591 3.4 121.0 1.0
C D:ARG503 3.4 105.2 1.0
OE1 D:GLU591 3.5 131.6 1.0
CB D:ASP356 3.9 113.8 1.0
CA D:GLU591 4.0 116.5 1.0
N D:SER504 4.0 117.9 1.0
CG D:GLU525 4.1 115.3 1.0
CA D:GLY523 4.1 120.6 1.0
CG D:GLU591 4.1 131.6 1.0
OD1 D:ASP356 4.1 121.7 1.0
CA D:SER504 4.1 123.1 1.0
N D:ARG503 4.1 112.0 1.0
OH D:TYR527 4.3 124.0 1.0
CA D:ARG503 4.4 106.6 1.0
N D:MET524 4.4 118.8 1.0
N D:SER592 4.5 123.7 1.0
CA D:MET524 4.5 120.5 1.0
CB D:GLU591 4.6 122.8 1.0
CA D:SER592 4.7 122.4 1.0
C D:MET524 4.7 122.7 1.0
N D:GLU525 4.8 121.9 1.0
O D:ALA590 4.8 113.2 1.0
CB D:SER592 4.9 121.0 1.0
C D:SER504 5.0 124.6 1.0

Calcium binding site 8 out of 8 in 9dkl

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Calcium binding site 8 out of 8 in the CA2+ Bound Aplysia SLO1 F304A


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of CA2+ Bound Aplysia SLO1 F304A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1102

b:107.5
occ:1.00
O D:ASP902 2.3 125.8 1.0
OD2 D:ASP907 2.3 145.6 1.0
O D:GLN899 2.3 106.4 1.0
OD2 D:ASP905 2.3 141.1 1.0
OD1 D:ASP907 2.4 152.4 1.0
OD1 D:ASP905 2.4 140.9 1.0
OD1 C:ASN438 2.6 99.3 1.0
CG D:ASP907 2.7 149.2 1.0
CG D:ASP905 2.7 139.6 1.0
C D:ASP902 3.4 127.5 1.0
C D:GLN899 3.5 105.7 1.0
CG C:ASN438 3.6 101.8 1.0
ND2 C:ASN438 3.9 100.1 1.0
CA D:GLN899 4.2 98.9 1.0
N D:GLN903 4.2 132.8 1.0
CB D:ASP907 4.2 147.2 1.0
CB D:ASP905 4.3 138.4 1.0
N D:ASP902 4.3 124.0 1.0
CA D:ASP902 4.3 124.8 1.0
CA D:GLN903 4.4 130.4 1.0
N D:PHE900 4.6 98.2 1.0
CB D:ASP902 4.7 127.4 1.0
CB D:GLN899 4.8 98.5 1.0
CA D:PHE900 4.9 92.0 1.0
N D:ASP907 4.9 146.1 1.0
CA D:ASP907 5.0 145.2 1.0

Reference:

G.F.Contreras, R.Shen, R.Latorre, E.Perozo. Structural Basis of Voltage-Dependent Gating in Bk Channels Nat Commun 2025.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-025-60639-Y
Page generated: Thu Jul 10 09:21:42 2025

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