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Potassium in PDB 5wtr: Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl

Protein crystallography data

The structure of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl, PDB code: 5wtr was solved by X.M.Ou, L.F.Wang, H.T.Yang, X.Y.Liu, Z.F.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.20
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 152.073, 87.730, 173.062, 90.00, 108.90, 90.00
R / Rfree (%) 21.1 / 22.9

Potassium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 33;

Binding sites:

The binding sites of Potassium atom in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl (pdb code 5wtr). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 33 binding sites of Potassium where determined in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl, PDB code: 5wtr:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 33 in 5wtr

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Potassium binding site 1 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K303

b:37.6
occ:1.00
 OD1 C:ASN142 2.6 35.3 1.0
OD1 A:ASN142 2.6 33.9 1.0
OD1 B:ASN142 2.6 35.0 1.0
O A:HOH404 2.8 22.4 1.0
O C:HOH402 2.8 28.3 1.0
O B:HOH401 2.8 28.0 1.0
CG A:ASN142 3.7 34.7 1.0
CG B:ASN142 3.7 37.1 1.0
CG C:ASN142 3.8 35.1 1.0
CA B:ASN142 4.1 34.9 1.0
CA C:ASN142 4.1 31.4 1.0
CA A:ASN142 4.2 32.7 1.0
O C:HOH420 4.2 32.8 1.0
O A:HOH410 4.3 23.9 1.0
O B:HOH430 4.3 35.7 1.0
CB B:ASN142 4.4 36.6 1.0
CB A:ASN142 4.4 34.0 1.0
O B:VAL139 4.5 23.0 1.0
CB C:ASN142 4.5 30.9 1.0
O A:VAL139 4.6 25.9 1.0
O C:VAL139 4.6 24.8 1.0
C C:ASN142 4.6 32.7 1.0
C B:ASN142 4.7 35.8 1.0
ND2 A:ASN142 4.7 36.8 1.0
ND2 B:ASN142 4.8 36.7 1.0
ND2 C:ASN142 4.8 32.7 1.0
C A:ASN142 4.8 32.6 1.0
O B:ASN142 4.9 34.1 1.0
O C:ASN142 4.9 33.2 1.0

Potassium binding site 2 out of 33 in 5wtr

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Potassium binding site 2 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K304

b:57.7
occ:1.00
 O A:THR41 2.8 26.3 1.0
N A:GLY45 2.9 26.0 1.0
O A:HOH414 3.0 26.8 1.0
CE2 A:PHE104 3.4 30.6 1.0
CD2 A:PHE104 3.5 29.1 1.0
CA A:GLY133 3.5 27.7 1.0
CA A:GLY45 3.6 27.7 1.0
CD2 A:PHE16 3.7 21.7 1.0
N A:GLY133 3.7 26.1 1.0
N A:ALA44 3.8 29.1 1.0
C A:SER42 3.8 27.0 1.0
O A:SER42 3.8 26.6 1.0
CE2 A:PHE16 3.8 24.0 1.0
C A:THR41 3.8 27.3 1.0
CB A:ALA44 3.9 28.0 1.0
C A:ALA44 3.9 26.7 1.0
CA A:SER42 4.0 27.8 1.0
CA A:ALA44 4.0 27.9 1.0
N A:TYR43 4.3 27.4 1.0
C A:TYR43 4.3 29.2 1.0
CG A:PHE16 4.4 24.1 1.0
N A:SER42 4.4 26.8 1.0
O A:HOH413 4.6 31.0 1.0
CZ A:PHE16 4.6 22.7 1.0
CZ A:PHE104 4.7 28.1 1.0
CG A:PHE104 4.8 27.6 1.0
C A:GLY45 4.8 27.9 1.0
CA A:TYR43 4.8 29.3 1.0
C A:GLY133 4.8 26.9 1.0
O A:VAL129 4.9 21.1 1.0
O A:TYR43 4.9 28.6 1.0
CB A:PHE16 4.9 26.8 1.0
N A:GLY46 5.0 28.8 1.0
C A:GLY132 5.0 27.0 1.0

Potassium binding site 3 out of 33 in 5wtr

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Potassium binding site 3 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K305

b:98.9
occ:1.00
 OD1 A:ASP50 3.0 31.9 1.0
O A:HOH464 3.1 43.4 1.0
O A:GLY46 3.1 27.3 1.0
CG A:ASP50 3.4 33.3 1.0
NE2 A:GLN59 3.5 54.5 1.0
OD2 A:ASP50 3.5 36.2 1.0
CB A:ALA49 3.6 19.5 1.0
CA A:GLY46 3.6 26.8 1.0
O A:HOH430 3.6 41.0 1.0
CD1 A:LEU111 3.7 33.2 1.0
C A:GLY46 3.7 27.0 1.0
O2 A:EDO301 3.8 55.4 1.0
CD A:GLN59 3.8 55.5 1.0
C2 A:EDO301 3.8 56.7 1.0
C1 A:EDO301 3.9 58.0 1.0
CG A:GLN59 3.9 51.7 1.0
N A:ASP50 4.0 24.5 1.0
O A:HOH441 4.2 52.6 1.0
CB A:ASP50 4.4 27.9 1.0
OE1 A:GLN59 4.6 56.5 1.0
C A:ALA49 4.6 23.8 1.0
O1 A:EDO301 4.6 59.0 1.0
CA A:ALA49 4.6 22.3 1.0
CA A:ASP50 4.6 27.3 1.0
N A:GLY46 4.9 28.8 1.0
O A:GLY45 5.0 27.6 1.0

Potassium binding site 4 out of 33 in 5wtr

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Potassium binding site 4 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K306

b:85.1
occ:1.00
 OG1 A:THR155 2.9 29.4 1.0
O A:GLU151 2.9 33.4 1.0
CE1 C:PHE32 3.5 33.5 1.0
CG2 A:THR155 3.5 28.4 1.0
CZ C:PHE32 3.5 35.1 1.0
CD1 C:PHE32 3.5 32.6 1.0
CG1 A:ILE152 3.6 38.3 1.0
CB A:THR155 3.6 30.7 1.0
CE2 C:PHE32 3.6 35.9 1.0
CG C:PHE32 3.7 31.6 1.0
CD2 C:PHE32 3.7 32.9 1.0
CA A:ILE152 3.7 34.8 1.0
O A:HOH420 3.8 25.8 1.0
C A:GLU151 3.9 33.6 1.0
CB A:ILE152 4.1 35.5 1.0
N A:ILE152 4.2 33.6 1.0
CG2 A:ILE152 4.4 36.8 1.0
CB C:PHE32 4.6 28.9 1.0
CD1 A:ILE152 4.7 41.2 1.0
C A:ILE152 4.9 35.1 1.0

Potassium binding site 5 out of 33 in 5wtr

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Potassium binding site 5 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K307

b:73.3
occ:1.00
 O A:HOH420 3.0 25.8 1.0
O A:VAL147 3.0 24.9 1.0
O A:LYS150 3.0 34.6 1.0
N A:ALA154 3.2 28.7 1.0
CB A:TYR153 3.5 27.8 1.0
CB A:ALA154 3.5 27.4 1.0
OG1 C:THR36 3.8 21.8 1.0
C A:VAL147 3.8 23.6 1.0
CA A:ALA154 3.9 29.1 1.0
N A:TYR153 4.0 32.9 1.0
CA A:TYR153 4.1 30.3 1.0
C A:TYR153 4.1 31.2 1.0
C A:LYS150 4.2 34.4 1.0
CA A:VAL147 4.3 22.3 1.0
O A:GLU151 4.5 33.4 1.0
CG A:TYR153 4.5 28.0 1.0
CD2 A:TYR153 4.6 27.1 1.0
C A:GLU151 4.6 33.6 1.0
O C:PHE32 4.6 24.9 1.0
CG2 A:VAL147 4.6 24.0 1.0
O A:MET146 4.6 25.7 1.0
CB C:THR36 4.7 21.6 1.0
C C:PHE32 4.8 25.8 1.0
N A:THR155 4.8 27.8 1.0
N A:LEU148 4.8 23.3 1.0
CB C:PHE32 4.8 28.9 1.0
CA A:GLU151 4.8 33.0 1.0
CA C:GLY33 4.9 23.0 1.0
N C:GLY33 4.9 24.4 1.0
CG2 C:THR36 4.9 23.0 1.0
C A:ALA154 5.0 28.6 1.0

Potassium binding site 6 out of 33 in 5wtr

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Potassium binding site 6 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K303

b:71.6
occ:1.00
 O B:THR41 2.8 27.9 1.0
N B:GLY45 2.9 29.9 1.0
O B:HOH406 3.0 29.2 1.0
CA B:GLY133 3.5 32.4 1.0
CD2 B:PHE104 3.5 37.2 1.0
CA B:GLY45 3.5 29.8 1.0
CE2 B:PHE104 3.6 37.6 1.0
CD2 B:PHE16 3.7 29.6 1.0
N B:GLY133 3.7 33.8 1.0
CE2 B:PHE16 3.7 27.2 1.0
O B:SER42 3.8 31.1 1.0
CB B:ALA44 3.9 26.8 1.0
N B:ALA44 3.9 29.2 1.0
C B:ALA44 3.9 29.5 1.0
C B:THR41 3.9 29.2 1.0
C B:SER42 3.9 30.2 1.0
CA B:ALA44 4.0 29.0 1.0
CA B:SER42 4.2 30.0 1.0
CG B:PHE16 4.4 31.5 1.0
CZ B:PHE16 4.5 31.3 1.0
C B:TYR43 4.5 28.6 1.0
N B:SER42 4.5 28.6 1.0
N B:TYR43 4.5 29.7 1.0
O B:HOH407 4.6 36.0 1.0
C B:GLY133 4.7 31.6 1.0
CG B:PHE104 4.8 36.0 1.0
O B:VAL129 4.8 32.1 1.0
C B:GLY45 4.8 29.9 1.0
C B:GLY132 4.9 33.7 1.0
CZ B:PHE104 4.9 37.2 1.0
CB B:PHE16 5.0 33.5 1.0
CD1 B:PHE16 5.0 32.1 1.0

Potassium binding site 7 out of 33 in 5wtr

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Potassium binding site 7 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K304

b:0.2
occ:1.00
 O B:HOH446 3.0 45.2 1.0
O B:HOH434 3.1 59.1 1.0
OD1 B:ASP50 3.1 37.6 1.0
O1 B:EDO301 3.3 55.5 1.0
O B:GLY46 3.4 31.7 1.0
C1 B:EDO301 3.4 54.4 1.0
O B:HOH418 3.5 36.5 1.0
CG B:ASP50 3.6 36.4 1.0
OD2 B:ASP50 3.7 39.7 1.0
CD1 B:LEU111 3.7 38.1 1.0
CA B:GLY46 3.8 30.1 1.0
C B:GLY46 4.0 31.9 1.0
CB B:ALA49 4.0 26.2 1.0
C2 B:EDO301 4.0 55.3 1.0
N B:ASP50 4.6 31.7 1.0
CB B:ASP50 4.8 33.5 1.0
O2 B:EDO301 4.8 56.9 1.0
O B:HOH413 4.9 46.4 1.0

Potassium binding site 8 out of 33 in 5wtr

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Potassium binding site 8 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K305

b:0.7
occ:1.00
 OG1 B:THR155 2.9 43.6 1.0
O B:GLU151 3.0 47.1 1.0
CG1 B:ILE152 3.5 49.4 1.0
CZ A:PHE32 3.5 51.7 1.0
CE1 A:PHE32 3.6 51.3 1.0
CE2 A:PHE32 3.6 52.1 1.0
CD1 A:PHE32 3.7 50.7 1.0
CD2 A:PHE32 3.7 50.8 1.0
CA B:ILE152 3.7 47.1 1.0
CG A:PHE32 3.7 49.9 1.0
CB B:THR155 3.8 42.4 1.0
CG2 B:THR155 3.8 42.2 1.0
C B:GLU151 3.9 47.3 1.0
O B:HOH415 4.0 37.7 1.0
CB B:ILE152 4.1 48.4 1.0
N B:ILE152 4.2 46.4 1.0
CG2 B:ILE152 4.4 48.2 1.0
CD1 B:ILE152 4.6 51.9 1.0
CB A:PHE32 4.6 46.1 1.0
C B:ILE152 5.0 46.4 1.0

Potassium binding site 9 out of 33 in 5wtr

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Potassium binding site 9 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K306

b:86.3
occ:1.00
 O B:VAL147 2.8 34.7 1.0
O B:HOH415 2.9 37.7 1.0
N B:ALA154 3.2 41.4 1.0
O B:LYS150 3.2 47.8 1.0
CB B:ALA154 3.5 39.4 1.0
OG1 A:THR36 3.5 36.4 1.0
CB B:TYR153 3.7 38.1 1.0
C B:VAL147 3.7 33.4 1.0
CA B:ALA154 3.9 41.0 1.0
N B:TYR153 4.1 44.7 1.0
C B:TYR153 4.2 41.5 1.0
CA B:TYR153 4.2 42.2 1.0
CA B:VAL147 4.2 33.1 1.0
CG2 B:VAL147 4.4 32.9 1.0
C B:LYS150 4.4 47.8 1.0
O A:PHE32 4.5 44.8 1.0
CB A:THR36 4.5 36.1 1.0
O B:GLU151 4.5 47.1 1.0
C B:GLU151 4.7 47.3 1.0
CG B:TYR153 4.7 36.8 1.0
C A:PHE32 4.7 44.8 1.0
CG2 A:THR36 4.7 37.4 1.0
O B:MET146 4.7 37.2 1.0
N B:LEU148 4.7 32.9 1.0
CA A:GLY33 4.8 41.2 1.0
CD1 B:TYR153 4.8 35.3 1.0
N B:THR155 4.8 41.2 1.0
N A:GLY33 4.8 43.0 1.0
CB A:PHE32 4.9 46.1 1.0
C B:ALA154 4.9 41.1 1.0
CA B:GLU151 4.9 48.4 1.0
CB B:VAL147 5.0 33.2 1.0

Potassium binding site 10 out of 33 in 5wtr

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Potassium binding site 10 out of 33 in the Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Crystal Structure of A Prokaryotic Tric Channel in 0.5 M Kcl within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K303

b:56.1
occ:1.00
 OH C:TYR113 2.9 26.9 1.0
O C:HOH427 2.9 55.1 1.0
CE1 C:TYR113 3.7 24.8 1.0
CZ C:TYR113 3.7 26.3 1.0
CG2 C:THR168 3.8 27.1 1.0
CG C:PRO169 3.9 25.4 1.0
CA C:PRO169 4.0 25.5 1.0
N C:PRO169 4.0 24.6 1.0
CD C:PRO169 4.2 25.5 1.0
C C:THR168 4.3 26.0 1.0
CB C:THR168 4.4 28.1 1.0
CB C:PRO169 4.4 25.4 1.0
O C:THR168 4.5 24.8 1.0
O C:HOH410 4.7 28.1 1.0
CA C:THR168 5.0 27.8 1.0

Reference:

X.M.Ou, J.L.Guo, L.F.Wang, H.T.Yang, X.Y.Liu, J.Y.Sun, Z.F.Liu. Ion and Water Binding Sites Inside An Occluded Hourglass Pore of A Tric Channel Bmc Biol. 2017.
ISSN: ESSN 1741-7007
Page generated: Mon Dec 14 00:12:57 2020

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