Atomistry » Potassium » PDB 8g7m-8jxo » 8gyr
Atomistry »
  Potassium »
    PDB 8g7m-8jxo »
      8gyr »

Potassium in PDB 8gyr: Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga

Protein crystallography data

The structure of Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga, PDB code: 8gyr was solved by P.Kumar, M.Akif, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 85.92 / 1.87
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 34.219, 63.905, 171.839, 90, 90, 90
R / Rfree (%) 20.8 / 23.4

Other elements in 8gyr:

The structure of Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga also contains other interesting chemical elements:

Calcium (Ca) 2 atoms
Chlorine (Cl) 1 atom
Iodine (I) 2 atoms
Sodium (Na) 5 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga (pdb code 8gyr). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 5 binding sites of Potassium where determined in the Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga, PDB code: 8gyr:
Jump to Potassium binding site number: 1; 2; 3; 4; 5;

Potassium binding site 1 out of 5 in 8gyr

Go back to Potassium Binding Sites List in 8gyr
Potassium binding site 1 out of 5 in the Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga


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 Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K201

b:14.8
occ:0.50
 O A:SER172 2.6 15.3 1.0
O A:HOH451 3.0 18.7 1.0
O A:HOH369 3.0 17.3 1.0
N A:ILE97 3.2 14.9 1.0
CB A:SER96 3.5 14.5 1.0
CA A:SER96 3.5 13.9 1.0
C A:SER172 3.6 16.7 1.0
O A:ILE97 3.6 18.0 1.0
O B:HOH345 3.8 19.0 1.0
C A:SER96 3.8 14.0 1.0
O A:HOH435 3.9 30.2 1.0
CA A:SER173 3.9 14.7 1.0
O A:HOH381 3.9 26.6 1.0
O A:HOH397 4.1 12.3 1.0
N A:SER173 4.1 15.7 1.0
CA A:ILE97 4.2 15.6 1.0
CG1 A:VAL171 4.3 12.3 1.0
C A:ILE97 4.3 17.6 1.0
C A:SER173 4.3 15.3 1.0
OG1 B:THR6 4.5 16.4 1.0
CB A:ILE97 4.5 14.9 1.0
N A:ALA174 4.5 16.1 1.0
N A:SER172 4.6 15.2 1.0
O A:THR95 4.7 12.5 1.0
CA A:SER172 4.7 16.0 1.0
OG A:SER96 4.8 19.9 1.0
CB B:THR6 4.8 16.0 1.0
N A:SER96 4.8 13.9 1.0
O A:SER173 4.9 15.0 1.0

Potassium binding site 2 out of 5 in 8gyr

Go back to Potassium Binding Sites List in 8gyr
Potassium binding site 2 out of 5 in the Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga


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 Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K202

b:33.9
occ:1.00
 OG A:SER53 2.8 11.4 1.0
O A:HOH313 2.9 13.3 1.0
O A:HOH318 3.6 11.6 1.0
O A:HOH418 3.7 12.9 1.0
CB A:SER53 3.8 11.7 1.0
CA A:SER53 4.2 11.1 1.0
O A:HOH370 4.3 13.1 1.0
O A:MET54 4.6 11.2 1.0
N A:MET54 4.7 10.3 1.0
C A:SER53 4.9 11.4 1.0

Potassium binding site 3 out of 5 in 8gyr

Go back to Potassium Binding Sites List in 8gyr
Potassium binding site 3 out of 5 in the Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga


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 Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K203

b:42.4
occ:1.00
 O B:HOH394 2.9 22.3 1.0
O B:LEU52 3.0 17.7 1.0
O B:HOH379 3.1 21.6 1.0
O B:SER49 3.1 19.4 1.0
CA B:LYS50 3.7 21.6 1.0
C B:SER49 3.8 20.9 1.0
OG B:SER47 3.9 16.4 1.0
C B:LEU52 3.9 18.6 1.0
N B:LYS50 4.0 21.6 1.0
CA B:SER53 4.1 21.2 1.0
CB B:SER47 4.1 17.3 1.0
O B:HOH420 4.3 21.1 1.0
CG B:LYS50 4.4 24.1 1.0
N B:SER53 4.4 19.2 1.0
C B:LYS50 4.4 20.2 1.0
O B:LYS50 4.6 20.0 1.0
O B:HOH311 4.6 17.2 1.0
O B:SER47 4.6 20.4 1.0
CB B:LYS50 4.6 22.7 1.0
N B:MET54 4.8 24.7 1.0
CB B:SER53 4.9 23.5 1.0
CA B:SER49 4.9 21.1 1.0
N B:SER49 4.9 20.6 1.0
C B:SER53 5.0 20.9 1.0
N B:LEU52 5.0 18.4 1.0

Potassium binding site 4 out of 5 in 8gyr

Go back to Potassium Binding Sites List in 8gyr
Potassium binding site 4 out of 5 in the Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga


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 Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K204

b:35.6
occ:1.00
 O B:SER172 2.7 15.6 1.0
O B:HOH322 2.9 20.9 1.0
N B:ILE97 3.4 19.4 1.0
CB B:SER96 3.4 19.0 1.0
CA B:SER96 3.6 18.1 1.0
OG1 A:THR6 3.7 20.1 1.0
O B:ILE97 3.7 17.4 1.0
C B:SER172 3.7 16.9 1.0
CA B:SER173 3.9 18.8 1.0
CB A:THR6 4.0 20.9 1.0
C B:SER96 4.1 19.4 1.0
C B:SER173 4.1 20.3 1.0
N B:GLN174 4.2 24.0 1.0
N B:SER173 4.2 18.1 1.0
O B:HOH381 4.3 11.3 1.0
CG2 A:THR6 4.3 22.2 1.0
CA B:ILE97 4.4 19.4 1.0
C B:ILE97 4.4 20.8 1.0
CG1 B:VAL171 4.6 13.0 1.0
O B:SER173 4.7 15.6 1.0
O B:THR95 4.7 19.4 1.0
OG B:SER96 4.7 19.7 1.0
CB B:ILE97 4.8 19.6 1.0
N B:SER96 4.9 19.2 1.0
O B:HOH339 4.9 33.1 1.0
N B:SER172 4.9 15.1 1.0
CA B:SER172 5.0 14.4 1.0

Potassium binding site 5 out of 5 in 8gyr

Go back to Potassium Binding Sites List in 8gyr
Potassium binding site 5 out of 5 in the Crystal Structure of A Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga


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 Variable Region Segment of Leptospira Host- Interacting Outer Surface Protein, Liga within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K209

b:13.2
occ:1.00
 ND2 B:ASN139 3.6 30.4 1.0
O B:HOH391 4.0 23.0 1.0
O B:HOH421 4.0 25.5 1.0
O B:HOH397 4.1 24.8 1.0
O B:HOH315 4.3 36.0 1.0
O B:HOH350 4.4 16.1 1.0
CG B:ASN139 4.7 26.1 1.0
O B:HOH416 4.8 34.1 1.0
OD1 B:ASN139 4.9 24.7 1.0

Reference:

P.Kumar, P.Vyas, S.M.Faisal, Y.F.Chang, M.Akif. Crystal Structure of A Variable Region Segment of Leptospira Host-Interacting Outer Surface Protein, Liga, Reveals the Orientation of Ig-Like Domains. Int.J.Biol.Macromol. 25445 2023.
ISSN: ISSN 0141-8130
PubMed: 37336372
DOI: 10.1016/J.IJBIOMAC.2023.125445
Page generated: Mon Aug 12 23:52:17 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy