Atomistry » Potassium » PDB 1d7v-1gmk » 1gmk
Atomistry »
  Potassium »
    PDB 1d7v-1gmk »
      1gmk »

Potassium in PDB 1gmk: Gramicidin/Kscn Complex

Protein crystallography data

The structure of Gramicidin/Kscn Complex, PDB code: 1gmk was solved by D.A.Doyle, B.A.Wallace, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 32.060, 51.800, 31.040, 90.00, 90.00, 90.00
R / Rfree (%) 19.2 / n/a

Potassium Binding Sites:

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

Potassium binding site 1 out of 4 in 1gmk

Go back to Potassium Binding Sites List in 1gmk
Potassium binding site 1 out of 4 in the Gramicidin/Kscn Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Gramicidin/Kscn Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K17

b:21.4
occ:0.50
 O1 B:FVA1 2.1 29.4 1.0
O A:TRP13 2.9 4.6 1.0
CN B:FVA1 3.2 4.3 1.0
CA A:DLE14 3.3 39.3 1.0
CB A:ETA16 3.6 12.8 1.0
N A:ETA16 3.6 6.7 1.0
N A:TRP15 3.6 7.7 1.0
O A:MOH22 3.7 20.7 1.0
C A:TRP13 3.7 36.1 1.0
N B:FVA1 3.8 25.0 1.0
O B:GLY2 3.8 37.2 1.0
N A:DLE14 3.9 48.1 1.0
C A:DLE14 4.0 39.1 1.0
CA A:ETA16 4.0 18.8 1.0
C A:MOH22 4.2 2.0 1.0
CB A:DLE14 4.2 35.0 1.0
O A:ETA16 4.6 18.5 1.0
C A:TRP15 4.6 6.5 1.0
CA B:FVA1 4.7 16.4 1.0
C B:FVA1 4.7 40.7 1.0
CA A:TRP15 4.8 20.4 1.0
C B:GLY2 4.9 3.3 1.0
N B:GLY2 4.9 18.1 1.0
CA A:TRP13 5.0 29.1 1.0

Potassium binding site 2 out of 4 in 1gmk

Go back to Potassium Binding Sites List in 1gmk
Potassium binding site 2 out of 4 in the Gramicidin/Kscn Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Gramicidin/Kscn Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K17

b:36.6
occ:1.00
 O B:DVA6 2.0 20.8 1.0
C B:DVA6 3.1 42.2 1.0
O B:DVA8 3.1 50.3 1.0
N B:DVA8 3.2 16.5 1.0
C B:VAL7 3.3 21.8 1.0
C A:TRP9 3.4 2.0 1.0
C B:DVA8 3.5 19.1 1.0
N A:TRP9 3.6 32.7 1.0
O A:TRP9 3.6 18.4 1.0
CA A:TRP9 3.7 2.0 1.0
CA B:DVA8 3.7 6.5 1.0
O A:DLE10 3.7 28.3 1.0
O B:VAL7 3.7 22.6 1.0
N B:VAL7 3.7 2.0 1.0
CA B:VAL7 3.8 2.0 1.0
N A:DLE10 3.8 18.9 1.0
O A:VAL7 4.0 7.3 1.0
C A:DLE10 4.1 28.7 1.0
O B:DLE10 4.1 24.6 1.0
CA B:DVA6 4.2 12.1 1.0
C A:DVA8 4.3 26.7 1.0
N A:DLE12 4.3 31.2 1.0
N B:TRP9 4.3 43.5 1.0
O A:DLE12 4.4 36.2 1.0
CA A:DLE10 4.4 15.9 1.0
S A:SCN18 4.7 25.5 1.0
N B:DVA6 4.7 37.4 1.0
O A:DVA8 4.8 28.5 1.0
N B:DLE10 4.8 8.9 1.0
C A:VAL7 4.9 45.6 1.0
C A:DLE12 4.9 30.8 1.0
N A:TRP11 4.9 40.3 1.0
O B:ALA5 4.9 38.7 1.0
CA A:DVA8 4.9 47.3 1.0
CA B:TRP9 4.9 2.0 1.0
CA A:DLE12 5.0 7.2 1.0

Potassium binding site 3 out of 4 in 1gmk

Go back to Potassium Binding Sites List in 1gmk
Potassium binding site 3 out of 4 in the Gramicidin/Kscn Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Gramicidin/Kscn Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K17

b:28.5
occ:0.70
 O1 D:FVA1 2.8 8.3 1.0
CB C:ETA16 3.0 16.6 1.0
CN D:FVA1 3.5 23.5 1.0
O D:MOH21 3.8 13.9 1.0
O C:ETA16 3.9 3.9 1.0
N C:ETA16 3.9 11.3 1.0
CA C:ETA16 4.0 18.1 1.0
N D:FVA1 4.0 60.0 1.0
C C:TRP15 4.4 30.1 1.0
N C:TRP15 4.4 41.4 1.0
O D:GLY2 4.6 27.0 1.0
O C:TRP13 4.6 9.3 1.0
O C:TRP15 4.7 25.3 1.0
CA D:FVA1 5.0 47.8 1.0

Potassium binding site 4 out of 4 in 1gmk

Go back to Potassium Binding Sites List in 1gmk
Potassium binding site 4 out of 4 in the Gramicidin/Kscn Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Gramicidin/Kscn Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K17

b:33.9
occ:1.00
 O D:DVA6 2.4 29.7 1.0
O D:DVA8 2.8 26.6 1.0
C D:DVA6 3.3 18.7 1.0
C D:VAL7 3.3 34.3 1.0
O C:TRP9 3.5 2.0 1.0
O D:ALA5 3.5 16.3 1.0
O D:VAL7 3.5 29.2 1.0
N D:DVA8 3.6 16.0 1.0
C C:TRP9 3.6 5.2 1.0
N C:TRP11 3.7 43.4 1.0
C D:DVA8 3.7 33.1 1.0
CA D:VAL7 3.7 32.5 1.0
N D:VAL7 3.8 18.9 1.0
O C:VAL7 3.9 21.7 1.0
C C:DLE10 4.0 7.8 1.0
N C:DLE10 4.0 3.2 1.0
CA C:TRP11 4.0 17.7 1.0
O C:DLE12 4.1 41.9 1.0
N C:DLE12 4.1 37.4 1.0
N C:TRP9 4.1 14.3 1.0
CA D:DVA8 4.1 26.3 1.0
CA C:TRP9 4.2 12.1 1.0
C D:ALA5 4.2 25.0 1.0
C C:TRP11 4.2 32.6 1.0
CA D:DVA6 4.3 2.0 1.0
CA C:DLE10 4.3 2.9 1.0
O D:DLE4 4.4 24.4 1.0
C C:DLE12 4.5 21.0 1.0
O C:DLE10 4.6 33.4 1.0
N D:DVA6 4.6 2.0 1.0
C C:DVA8 4.6 2.0 1.0
N D:TRP9 4.8 34.6 1.0
C D:DLE4 4.9 35.3 1.0
N C:TRP13 4.9 36.1 1.0
CA C:DLE12 4.9 27.7 1.0
O C:TRP11 5.0 30.3 1.0
O C:DVA8 5.0 19.8 1.0
C C:VAL7 5.0 35.6 1.0

Reference:

D.A.Doyle, B.A.Wallace. Crystal Structure of the Gramicidin/Potassium Thiocyanate Complex. J.Mol.Biol. V. 266 963 1997.
ISSN: ISSN 0022-2836
PubMed: 9086274
DOI: 10.1006/JMBI.1996.0837
Page generated: Mon Aug 12 04:31:24 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy