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Potassium in PDB 4j9u: Crystal Structure of the Trkh/Trka Potassium Transport Complex

Protein crystallography data

The structure of Crystal Structure of the Trkh/Trka Potassium Transport Complex, PDB code: 4j9u was solved by Y.Cao, X.Jin, H.Huang, E.J.Levin, M.Zhou, New York Consortium On Membraneprotein Structure (Nycomps), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.79 / 3.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 133.725, 146.627, 163.672, 90.00, 99.32, 90.00
R / Rfree (%) 23.2 / 28

Other elements in 4j9u:

The structure of Crystal Structure of the Trkh/Trka Potassium Transport Complex also contains other interesting chemical elements:

Bromine (Br) 216 atoms
Tantalum (Ta) 108 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of the Trkh/Trka Potassium Transport Complex (pdb code 4j9u). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of the Trkh/Trka Potassium Transport Complex, PDB code: 4j9u:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 4j9u

Go back to Potassium Binding Sites List in 4j9u
Potassium binding site 1 out of 4 in the Crystal Structure of the Trkh/Trka Potassium Transport Complex


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 the Trkh/Trka Potassium Transport Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K504

b:66.5
occ:1.00
 O A:GLY221 2.6 57.0 1.0
O A:LEU438 2.7 0.1 1.0
O A:THR320 2.7 66.2 1.0
O A:ALA321 2.8 54.3 1.0
O A:THR112 2.8 57.6 1.0
O A:ASN437 2.9 46.3 1.0
O A:THR111 2.9 69.5 1.0
C A:GLY221 3.2 55.2 1.0
O A:ILE220 3.3 30.0 1.0
CA A:GLY221 3.6 54.5 1.0
C A:ALA321 3.6 50.7 1.0
C A:THR112 3.6 59.6 1.0
C A:LEU438 3.6 94.9 1.0
C A:THR320 3.9 59.1 1.0
C A:ASN437 3.9 49.4 1.0
C A:ILE220 3.9 56.7 1.0
C A:THR111 3.9 63.3 1.0
N A:GLY221 4.0 56.1 1.0
CA A:LEU438 4.1 40.5 1.0
CA A:ALA321 4.2 47.4 1.0
N A:GLY222 4.2 55.2 1.0
CA A:THR112 4.3 55.4 1.0
N A:LEU438 4.5 48.4 1.0
N A:ALA321 4.5 49.5 1.0
N A:GLY113 4.5 64.0 1.0
N A:GLY322 4.5 51.7 1.0
CA A:GLY222 4.6 58.2 1.0
N A:THR112 4.6 60.2 1.0
CG2 A:THR320 4.6 70.6 1.0
OG1 A:THR111 4.7 30.5 1.0
CA A:GLY113 4.7 65.0 1.0
N A:GLY439 4.7 85.5 1.0
CA A:GLY322 4.8 51.2 1.0
CB A:ASN437 4.9 45.2 1.0
CA A:THR320 5.0 59.9 1.0

Potassium binding site 2 out of 4 in 4j9u

Go back to Potassium Binding Sites List in 4j9u
Potassium binding site 2 out of 4 in the Crystal Structure of the Trkh/Trka Potassium Transport Complex


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 the Trkh/Trka Potassium Transport Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K503

b:73.4
occ:1.00
 O B:THR320 2.6 58.7 1.0
O B:THR112 2.7 53.6 1.0
O B:ASN437 2.7 63.3 1.0
O B:GLY221 2.7 72.3 1.0
O B:ALA321 2.8 82.8 1.0
O B:LEU438 2.9 64.1 1.0
O B:THR111 3.1 64.1 1.0
C B:GLY221 3.4 71.2 1.0
C B:ALA321 3.6 75.4 1.0
C B:THR112 3.6 56.2 1.0
O B:ILE220 3.7 68.1 1.0
C B:THR320 3.7 58.4 1.0
C B:LEU438 3.7 61.9 1.0
C B:ASN437 3.7 63.2 1.0
CA B:GLY221 3.9 77.2 1.0
CA B:LEU438 3.9 56.3 1.0
CA B:ALA321 4.1 68.1 1.0
C B:THR111 4.2 65.1 1.0
CA B:THR112 4.2 54.2 1.0
N B:LEU438 4.3 60.7 1.0
CG2 B:THR320 4.3 54.0 1.0
N B:ALA321 4.4 66.0 1.0
C B:ILE220 4.4 72.8 1.0
N B:GLY222 4.4 64.4 1.0
N B:GLY221 4.4 78.6 1.0
N B:GLY322 4.5 74.8 1.0
N B:GLY113 4.6 61.5 1.0
N B:THR112 4.7 59.9 1.0
CA B:GLY322 4.7 75.0 1.0
CA B:GLY222 4.8 62.4 1.0
CA B:THR320 4.8 48.6 1.0
CA B:GLY113 4.8 64.2 1.0
N B:GLY439 4.9 62.6 1.0
CB B:ASN437 4.9 57.9 1.0
CA B:ASN437 4.9 63.4 1.0
OG1 B:THR111 5.0 50.1 1.0

Potassium binding site 3 out of 4 in 4j9u

Go back to Potassium Binding Sites List in 4j9u
Potassium binding site 3 out of 4 in the Crystal Structure of the Trkh/Trka Potassium Transport Complex


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 the Trkh/Trka Potassium Transport Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K503

b:0.9
occ:1.00
 O C:GLY221 2.6 85.5 1.0
O C:THR320 2.7 74.9 1.0
O C:LEU438 2.7 84.0 1.0
O C:ALA321 2.8 84.2 1.0
O C:THR112 2.8 82.8 1.0
O C:ASN437 2.8 67.5 1.0
O C:THR111 2.9 90.2 1.0
C C:GLY221 3.2 88.4 1.0
O C:ILE220 3.3 83.7 1.0
CA C:GLY221 3.5 90.3 1.0
C C:LEU438 3.6 84.1 1.0
C C:ALA321 3.6 83.9 1.0
C C:THR112 3.7 82.3 1.0
C C:THR320 3.8 71.2 1.0
C C:ASN437 3.9 70.7 1.0
C C:ILE220 4.0 83.1 1.0
C C:THR111 4.0 87.3 1.0
N C:GLY221 4.0 90.6 1.0
CA C:ALA321 4.1 78.6 1.0
CA C:LEU438 4.2 71.0 1.0
CA C:THR112 4.2 83.8 1.0
N C:GLY222 4.2 89.5 1.0
N C:ALA321 4.4 76.4 1.0
CG2 C:THR320 4.4 61.5 1.0
N C:LEU438 4.4 73.7 1.0
N C:GLY439 4.5 83.5 1.0
N C:GLY322 4.6 86.8 1.0
N C:THR112 4.6 88.6 1.0
N C:GLY113 4.6 81.2 1.0
CA C:GLY222 4.7 89.4 1.0
CB C:ASN437 4.8 64.2 1.0
CA C:THR320 4.9 60.8 1.0
CA C:GLY322 4.9 85.8 1.0
CA C:GLY113 4.9 82.1 1.0
CA C:ASN437 5.0 68.1 1.0

Potassium binding site 4 out of 4 in 4j9u

Go back to Potassium Binding Sites List in 4j9u
Potassium binding site 4 out of 4 in the Crystal Structure of the Trkh/Trka Potassium Transport Complex


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 the Trkh/Trka Potassium Transport Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K504

b:0.9
occ:1.00
 O D:GLY221 2.6 70.1 1.0
O D:THR320 2.7 77.5 1.0
O D:LEU438 2.7 88.3 1.0
O D:ALA321 2.9 80.5 1.0
O D:THR111 2.9 81.4 1.0
O D:THR112 2.9 76.8 1.0
O D:ASN437 3.0 79.2 1.0
C D:GLY221 3.1 74.3 1.0
O D:ILE220 3.3 67.5 1.0
CA D:GLY221 3.6 75.3 1.0
C D:LEU438 3.7 85.2 1.0
C D:ALA321 3.7 81.4 1.0
C D:THR112 3.7 79.8 1.0
C D:THR320 3.8 74.7 1.0
C D:ILE220 3.9 70.2 1.0
N D:GLY221 4.0 75.0 1.0
C D:THR111 4.0 80.8 1.0
C D:ASN437 4.0 76.9 1.0
N D:GLY222 4.1 77.5 1.0
CA D:ALA321 4.2 78.3 1.0
CA D:LEU438 4.2 69.3 1.0
CA D:THR112 4.4 81.2 1.0
N D:ALA321 4.4 75.9 1.0
CA D:GLY222 4.5 81.7 1.0
CG2 D:THR320 4.5 88.3 1.0
N D:LEU438 4.6 75.3 1.0
N D:GLY113 4.6 79.3 1.0
N D:THR112 4.6 79.7 1.0
N D:GLY322 4.6 84.5 1.0
N D:GLY439 4.7 82.9 1.0
OG1 D:THR111 4.8 52.6 1.0
CA D:GLY113 4.8 80.0 1.0
CA D:THR320 4.9 73.2 1.0
CA D:GLY322 4.9 83.8 1.0
CG2 D:ILE220 5.0 69.0 1.0

Reference:

Y.Cao, Y.Pan, H.Huang, X.Jin, E.J.Levin, B.Kloss, M.Zhou. Gating of the Trkh Ion Channel By Its Associated Rck Protein Trka. Nature V. 496 317 2013.
ISSN: ISSN 0028-0836
PubMed: 23598339
DOI: 10.1038/NATURE12056
Page generated: Sun Dec 13 23:33:18 2020

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