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Potassium in PDB 6dz1: Studies of Ion Transport in K+ Channels

Protein crystallography data

The structure of Studies of Ion Transport in K+ Channels, PDB code: 6dz1 was solved by P.S.Langan, V.G.Vandavasi, K.L.Weiss, A.Wagner, R.Duman, K.El Omari, P.V.Afonine, L.Coates, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 54.15 / 2.26
Space group I 4
Cell size a, b, c (Å), α, β, γ (°) 68.070, 68.070, 89.380, 90.00, 90.00, 90.00
R / Rfree (%) 17.8 / 21.1

Potassium Binding Sites:

The binding sites of Potassium atom in the Studies of Ion Transport in K+ Channels (pdb code 6dz1). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 10 binding sites of Potassium where determined in the Studies of Ion Transport in K+ Channels, PDB code: 6dz1:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 10 in 6dz1

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Potassium binding site 1 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K201

b:40.6
occ:0.23
 O A:TYR66 2.7 36.4 1.0
O A:GLY65 3.2 31.9 1.0
C A:TYR66 3.4 38.0 1.0
K A:K202 3.6 36.4 0.2
CA A:TYR66 4.1 36.9 1.0
O A:HOH310 4.1 41.4 0.8
N A:GLY67 4.3 36.8 1.0
C A:GLY65 4.3 33.9 1.0
CA A:GLY67 4.5 36.3 1.0
N A:TYR66 4.7 32.0 1.0

Potassium binding site 2 out of 10 in 6dz1

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Potassium binding site 2 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K202

b:36.4
occ:0.25
 O A:GLY65 2.7 31.9 1.0
O A:VAL64 2.9 29.5 1.0
K A:K203 3.3 34.9 0.2
C A:GLY65 3.4 33.9 1.0
K A:K201 3.6 40.6 0.2
CA A:GLY65 4.0 29.9 1.0
C A:VAL64 4.0 29.2 1.0
N A:TYR66 4.4 32.0 1.0
N A:GLY65 4.4 28.7 1.0
CA A:TYR66 4.8 36.9 1.0

Potassium binding site 3 out of 10 in 6dz1

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Potassium binding site 3 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K203

b:34.9
occ:0.25
 O A:THR63 2.7 29.1 1.0
O A:VAL64 2.9 29.5 1.0
K A:K202 3.3 36.4 0.2
K A:K204 3.5 35.3 0.2
C A:VAL64 3.6 29.2 1.0
C A:THR63 3.8 30.3 1.0
CA A:VAL64 4.0 28.1 1.0
N A:VAL64 4.4 28.6 1.0
N A:GLY65 4.5 28.7 1.0
CA A:GLY65 4.9 29.9 1.0
CA A:THR63 5.0 27.4 1.0

Potassium binding site 4 out of 10 in 6dz1

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Potassium binding site 4 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K204

b:35.3
occ:0.25
 OG1 A:THR63 2.8 25.8 1.0
O A:THR63 2.9 29.1 1.0
CB A:THR63 3.5 29.9 1.0
K A:K203 3.5 34.9 0.2
C A:THR63 3.8 30.3 1.0
CA A:THR63 4.3 27.4 1.0
O A:HOH312 4.6 45.0 0.2
CG2 A:THR63 4.8 27.2 1.0
N A:VAL64 4.8 28.6 1.0
O A:THR62 5.0 30.3 1.0

Potassium binding site 5 out of 10 in 6dz1

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Potassium binding site 5 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K201

b:30.4
occ:0.22
 O B:TYR66 2.8 27.7 1.0
O B:GLY65 3.1 26.0 1.0
C B:TYR66 3.4 31.6 1.0
K B:K202 3.5 31.6 0.2
CA B:TYR66 4.0 28.8 1.0
C B:GLY65 4.2 29.6 1.0
N B:GLY67 4.3 24.2 1.0
O B:HOH311 4.4 44.0 1.0
CA B:GLY67 4.6 24.1 1.0
N B:TYR66 4.6 24.4 1.0

Potassium binding site 6 out of 10 in 6dz1

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Potassium binding site 6 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K202

b:31.6
occ:0.24
 O B:GLY65 2.8 26.0 1.0
O B:VAL64 2.9 24.7 1.0
K B:K203 3.3 30.5 0.2
K B:K201 3.5 30.4 0.2
C B:GLY65 3.5 29.6 1.0
CA B:GLY65 4.0 27.2 1.0
C B:VAL64 4.0 28.1 1.0
N B:TYR66 4.4 24.4 1.0
N B:GLY65 4.4 25.8 1.0
CA B:TYR66 4.8 28.8 1.0

Potassium binding site 7 out of 10 in 6dz1

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Potassium binding site 7 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K203

b:30.5
occ:0.25
 O B:THR63 2.6 28.6 1.0
O B:VAL64 2.9 24.7 1.0
K B:K202 3.3 31.6 0.2
K B:K204 3.5 36.8 0.2
C B:VAL64 3.6 28.1 1.0
C B:THR63 3.8 27.6 1.0
CA B:VAL64 4.1 25.7 1.0
N B:VAL64 4.4 28.5 1.0
N B:GLY65 4.5 25.8 1.0
CA B:GLY65 4.9 27.2 1.0
CA B:THR63 4.9 28.0 1.0

Potassium binding site 8 out of 10 in 6dz1

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Potassium binding site 8 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K204

b:36.8
occ:0.25
 OG1 B:THR63 2.9 26.3 1.0
O B:THR63 3.1 28.6 1.0
K B:K203 3.5 30.5 0.2
CB B:THR63 3.5 29.2 1.0
C B:THR63 3.9 27.6 1.0
CA B:THR63 4.4 28.0 1.0
CG2 B:THR63 4.7 26.2 1.0
N B:VAL64 5.0 28.5 1.0

Potassium binding site 9 out of 10 in 6dz1

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Potassium binding site 9 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K206

b:49.3
occ:0.56
 O B:LEU48 2.9 32.8 1.0
O B:SER43 2.9 37.0 1.0
C B:LEU48 3.6 34.5 1.0
C B:SER43 3.7 34.3 1.0
O B:GLY47 3.9 37.1 1.0
C B:GLY47 3.9 42.0 1.0
CB B:SER43 3.9 33.4 1.0
CA B:SER43 4.0 36.8 1.0
N B:LEU48 4.2 33.1 1.0
CA B:GLY47 4.3 37.5 1.0
N B:ARG49 4.3 34.8 1.0
CA B:ARG49 4.4 34.5 1.0
CA B:LEU48 4.5 33.2 1.0
CD B:PRO50 4.7 33.3 1.0
OG B:SER43 4.7 43.5 1.0
N B:THR44 4.9 30.7 1.0
C B:ARG49 5.0 33.0 1.0

Potassium binding site 10 out of 10 in 6dz1

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Potassium binding site 10 out of 10 in the Studies of Ion Transport in K+ Channels


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Studies of Ion Transport in K+ Channels within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K207

b:57.7
occ:1.00
 N B:ILE51 3.0 28.3 1.0
CG2 B:ILE51 3.4 32.9 1.0
CD B:PRO50 3.4 33.3 1.0
CB B:ILE51 3.5 33.7 1.0
N B:PRO50 3.6 35.3 1.0
CB B:PRO50 3.7 34.8 1.0
CA B:ILE51 3.9 31.8 1.0
C B:PRO50 3.9 33.7 1.0
CG B:PRO50 3.9 33.7 1.0
CA B:PRO50 3.9 34.6 1.0
CB B:ARG49 4.1 30.0 1.0
C B:ARG49 4.2 33.0 1.0
CA B:ARG49 4.6 34.5 1.0
NH1 B:ARG49 4.7 34.6 1.0
O B:HOH313 4.8 59.0 1.0
O B:ARG49 4.9 32.5 1.0
CG1 B:ILE51 4.9 36.6 1.0

Reference:

P.S.Langan, V.G.Vandavasi, K.L.Weiss, P.V.Afonine, K.El Omari, R.Duman, A.Wagner, L.Coates. Anomalous X-Ray Diffraction Studies of Ion Transport in K+Channels. Nat Commun V. 9 4540 2018.
ISSN: ESSN 2041-1723
PubMed: 30382100
DOI: 10.1038/S41467-018-06957-W
Page generated: Mon Aug 12 15:57:46 2024

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