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Cadmium in PDB 5bki: Blocker-Free Closed Mthk Channel in Nanodisc

Other elements in 5bki:

The structure of Blocker-Free Closed Mthk Channel in Nanodisc also contains other interesting chemical elements:

Potassium (K) 5 atoms

Cadmium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Cadmium atom in the Blocker-Free Closed Mthk Channel in Nanodisc (pdb code 5bki). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 12 binding sites of Cadmium where determined in the Blocker-Free Closed Mthk Channel in Nanodisc, PDB code: 5bki:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 12 in 5bki

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Cadmium binding site 1 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd401

b:99.4
occ:1.00
 OD1 A:ASP184 3.0 18.2 1.0
O A:HOH501 3.3 17.6 1.0
OE2 A:GLU210 3.5 20.9 1.0
CG A:ASP184 3.8 18.2 1.0
OD2 A:ASP184 3.9 18.2 1.0
CD A:GLU210 3.9 20.9 1.0
O A:LEU185 4.1 15.1 1.0
OE1 A:GLU210 4.2 20.9 1.0
OG A:SER124 4.2 20.4 1.0
CB A:SER124 4.4 20.4 1.0
CE1 A:PHE232 4.7 24.4 1.0
OG A:SER126 4.8 21.6 1.0
CE2 B:PHE232 4.8 22.0 1.0
CG A:GLU210 4.9 20.9 1.0
CZ A:PHE232 5.0 24.4 1.0

Cadmium binding site 2 out of 12 in 5bki

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Cadmium binding site 2 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd401

b:99.4
occ:1.00
 OD1 C:ASP184 3.0 18.2 1.0
O C:HOH501 3.3 17.6 1.0
OE2 C:GLU210 3.5 20.9 1.0
CG C:ASP184 3.8 18.2 1.0
OD2 C:ASP184 3.9 18.2 1.0
CD C:GLU210 3.9 20.9 1.0
O C:LEU185 4.1 15.1 1.0
OE1 C:GLU210 4.2 20.9 1.0
OG C:SER124 4.2 20.4 1.0
CB C:SER124 4.4 20.4 1.0
CE1 C:PHE232 4.7 24.4 1.0
OG C:SER126 4.8 21.6 1.0
CE2 D:PHE232 4.8 22.0 1.0
CG C:GLU210 4.9 20.9 1.0
CZ C:PHE232 5.0 24.4 1.0

Cadmium binding site 3 out of 12 in 5bki

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Cadmium binding site 3 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cd401

b:99.4
occ:1.00
 OD1 E:ASP184 3.0 18.2 1.0
O E:HOH501 3.3 17.6 1.0
OE2 E:GLU210 3.5 20.9 1.0
CG E:ASP184 3.8 18.2 1.0
OD2 E:ASP184 3.9 18.2 1.0
CD E:GLU210 3.9 20.9 1.0
O E:LEU185 4.1 15.1 1.0
OE1 E:GLU210 4.2 20.9 1.0
OG E:SER124 4.2 20.4 1.0
CB E:SER124 4.4 20.4 1.0
CE1 E:PHE232 4.7 24.4 1.0
OG E:SER126 4.8 21.6 1.0
CE2 F:PHE232 4.8 22.0 1.0
CG E:GLU210 4.9 20.9 1.0
CZ E:PHE232 5.0 24.4 1.0

Cadmium binding site 4 out of 12 in 5bki

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Cadmium binding site 4 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Cd401

b:99.4
occ:1.00
 OD1 G:ASP184 3.0 18.2 1.0
O G:HOH501 3.3 17.6 1.0
OE2 G:GLU210 3.5 20.9 1.0
CG G:ASP184 3.8 18.2 1.0
OD2 G:ASP184 3.9 18.2 1.0
CD G:GLU210 3.9 20.9 1.0
O G:LEU185 4.1 15.1 1.0
OE1 G:GLU210 4.2 20.9 1.0
OG G:SER124 4.2 20.4 1.0
CB G:SER124 4.4 20.4 1.0
CE1 G:PHE232 4.7 24.4 1.0
OG G:SER126 4.8 21.6 1.0
CE2 H:PHE232 4.8 22.0 1.0
CG G:GLU210 4.9 20.9 1.0
CZ G:PHE232 5.0 24.4 1.0

Cadmium binding site 5 out of 12 in 5bki

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Cadmium binding site 5 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd401

b:94.5
occ:1.00
 O B:LEU185 3.0 23.1 1.0
OD2 B:ASP184 3.6 27.3 1.0
OE1 B:GLU212 3.8 21.2 1.0
O B:GLU210 3.8 22.4 1.0
OE2 B:GLU210 4.0 22.4 1.0
OG1 B:THR191 4.1 15.9 1.0
C B:LEU185 4.1 23.1 1.0
N B:LEU185 4.2 23.1 1.0
CB B:GLU212 4.3 21.2 1.0
OD1 B:ASP188 4.3 17.1 1.0
O B:SER187 4.3 20.8 1.0
CD B:GLU210 4.4 22.4 1.0
CG B:GLU210 4.5 22.4 1.0
C B:SER187 4.5 20.8 1.0
N B:SER187 4.7 20.8 1.0
C B:GLU210 4.8 22.4 1.0
N B:GLU212 4.8 21.2 1.0
CA B:LEU185 4.8 23.1 1.0
C B:ASP184 4.8 27.3 1.0
CG B:ASP184 4.8 27.3 1.0
CD B:GLU212 4.9 21.2 1.0
CA B:SER187 4.9 20.8 1.0
CB B:GLU210 4.9 22.4 1.0
CA B:ASP184 4.9 27.3 1.0
N B:ASP188 4.9 17.1 1.0
C B:GLU186 5.0 26.2 1.0

Cadmium binding site 6 out of 12 in 5bki

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Cadmium binding site 6 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd402

b:103.3
occ:1.00
 OE2 B:GLU248 3.0 42.4 1.0
NH1 B:ARG241 3.5 32.6 1.0
O A:LEU256 3.8 34.0 1.0
CZ B:ARG241 3.8 32.6 1.0
CB B:ARG237 3.8 29.8 1.0
OE2 A:GLU259 3.8 43.1 1.0
CD B:ARG241 3.9 32.6 1.0
CD B:GLU248 4.0 42.4 1.0
NE B:ARG241 4.0 32.6 1.0
CD B:ARG237 4.0 29.8 1.0
OE1 B:GLU248 4.2 42.4 1.0
NH2 B:ARG241 4.5 32.6 1.0
CG B:ARG237 4.6 29.8 1.0
C A:LEU256 4.7 34.0 1.0
O B:ARG237 4.7 29.8 1.0
CA A:LEU256 4.7 34.0 1.0
CD2 A:LEU256 4.8 34.0 1.0
C B:ARG237 4.8 29.8 1.0
CD2 B:LEU238 4.8 25.0 1.0
CD A:GLU259 4.9 43.1 1.0
CA B:ARG237 4.9 29.8 1.0

Cadmium binding site 7 out of 12 in 5bki

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Cadmium binding site 7 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd401

b:94.5
occ:1.00
 O D:LEU185 3.0 23.1 1.0
OD2 D:ASP184 3.6 27.3 1.0
OE1 D:GLU212 3.8 21.2 1.0
O D:GLU210 3.8 22.4 1.0
OE2 D:GLU210 4.0 22.4 1.0
OG1 D:THR191 4.1 15.9 1.0
C D:LEU185 4.1 23.1 1.0
N D:LEU185 4.2 23.1 1.0
CB D:GLU212 4.3 21.2 1.0
OD1 D:ASP188 4.3 17.1 1.0
O D:SER187 4.3 20.8 1.0
CD D:GLU210 4.4 22.4 1.0
CG D:GLU210 4.5 22.4 1.0
C D:SER187 4.5 20.8 1.0
N D:SER187 4.7 20.8 1.0
C D:GLU210 4.8 22.4 1.0
N D:GLU212 4.8 21.2 1.0
CA D:LEU185 4.8 23.1 1.0
C D:ASP184 4.8 27.3 1.0
CG D:ASP184 4.8 27.3 1.0
CD D:GLU212 4.9 21.2 1.0
CA D:SER187 4.9 20.8 1.0
CB D:GLU210 4.9 22.4 1.0
CA D:ASP184 4.9 27.3 1.0
N D:ASP188 4.9 17.1 1.0
C D:GLU186 5.0 26.2 1.0

Cadmium binding site 8 out of 12 in 5bki

Go back to Cadmium Binding Sites List in 5bki
Cadmium binding site 8 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cd402

b:103.3
occ:1.00
 OE2 D:GLU248 3.0 42.4 1.0
NH1 D:ARG241 3.5 32.6 1.0
O C:LEU256 3.8 34.0 1.0
CZ D:ARG241 3.8 32.6 1.0
OE2 C:GLU259 3.8 43.1 1.0
CB D:ARG237 3.8 29.8 1.0
CD D:ARG241 3.9 32.6 1.0
CD D:GLU248 4.0 42.4 1.0
NE D:ARG241 4.0 32.6 1.0
CD D:ARG237 4.0 29.8 1.0
OE1 D:GLU248 4.2 42.4 1.0
NH2 D:ARG241 4.5 32.6 1.0
CG D:ARG237 4.6 29.8 1.0
C C:LEU256 4.6 34.0 1.0
O D:ARG237 4.7 29.8 1.0
CA C:LEU256 4.7 34.0 1.0
C D:ARG237 4.8 29.8 1.0
CD2 C:LEU256 4.8 34.0 1.0
CD2 D:LEU238 4.8 25.0 1.0
CD C:GLU259 4.9 43.1 1.0
CA D:ARG237 4.9 29.8 1.0

Cadmium binding site 9 out of 12 in 5bki

Go back to Cadmium Binding Sites List in 5bki
Cadmium binding site 9 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cd401

b:94.5
occ:1.00
 O F:LEU185 3.0 23.1 1.0
OD2 F:ASP184 3.6 27.3 1.0
OE1 F:GLU212 3.8 21.2 1.0
O F:GLU210 3.8 22.4 1.0
OE2 F:GLU210 4.0 22.4 1.0
OG1 F:THR191 4.1 15.9 1.0
C F:LEU185 4.1 23.1 1.0
N F:LEU185 4.2 23.1 1.0
CB F:GLU212 4.3 21.2 1.0
OD1 F:ASP188 4.3 17.1 1.0
O F:SER187 4.3 20.8 1.0
CD F:GLU210 4.4 22.4 1.0
CG F:GLU210 4.5 22.4 1.0
C F:SER187 4.5 20.8 1.0
N F:SER187 4.7 20.8 1.0
C F:GLU210 4.8 22.4 1.0
N F:GLU212 4.8 21.2 1.0
CA F:LEU185 4.8 23.1 1.0
C F:ASP184 4.8 27.3 1.0
CG F:ASP184 4.8 27.3 1.0
CD F:GLU212 4.9 21.2 1.0
CA F:SER187 4.9 20.8 1.0
CB F:GLU210 4.9 22.4 1.0
CA F:ASP184 4.9 27.3 1.0
N F:ASP188 4.9 17.1 1.0
C F:GLU186 5.0 26.2 1.0

Cadmium binding site 10 out of 12 in 5bki

Go back to Cadmium Binding Sites List in 5bki
Cadmium binding site 10 out of 12 in the Blocker-Free Closed Mthk Channel in Nanodisc


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of Blocker-Free Closed Mthk Channel in Nanodisc within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cd402

b:103.3
occ:1.00
 OE2 F:GLU248 3.0 42.4 1.0
NH1 F:ARG241 3.5 32.6 1.0
O E:LEU256 3.7 34.0 1.0
CZ F:ARG241 3.8 32.6 1.0
CB F:ARG237 3.8 29.8 1.0
OE2 E:GLU259 3.8 43.1 1.0
CD F:ARG241 3.9 32.6 1.0
CD F:GLU248 4.0 42.4 1.0
NE F:ARG241 4.0 32.6 1.0
CD F:ARG237 4.0 29.8 1.0
OE1 F:GLU248 4.2 42.4 1.0
NH2 F:ARG241 4.5 32.6 1.0
CG F:ARG237 4.6 29.8 1.0
C E:LEU256 4.6 34.0 1.0
O F:ARG237 4.7 29.8 1.0
CA E:LEU256 4.7 34.0 1.0
CD2 E:LEU256 4.7 34.0 1.0
C F:ARG237 4.8 29.8 1.0
CD2 F:LEU238 4.8 25.0 1.0
CD E:GLU259 4.9 43.1 1.0
CA F:ARG237 4.9 29.8 1.0

Reference:

F.Chen, F.Emelie, S.Nattakan, W.A.Toby, M.N.Crina. Quaternary Ammonium Ions Block and Inactivate Closed Calcium-Activated Potassium Channels Via Membrane Fenestrations To Be Published.
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