Atomistry » Potassium » PDB 5dkp-5f0g » 5ew4
Atomistry »
  Potassium »
    PDB 5dkp-5f0g »
      5ew4 »

Potassium in PDB 5ew4: Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+

Protein crystallography data

The structure of Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+, PDB code: 5ew4 was solved by D.R.Tomchick, D.W.Dodd, K.T.Gagnon, D.R.Corey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.92 / 1.47
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 41.020, 47.615, 58.900, 90.00, 90.00, 90.00
R / Rfree (%) 21.6 / 23.9

Other elements in 5ew4:

The structure of Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ also contains other interesting chemical elements:

Strontium (Sr) 1 atom
Magnesium (Mg) 2 atoms
Chlorine (Cl) 1 atom

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ (pdb code 5ew4). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 9 binding sites of Potassium where determined in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+, PDB code: 5ew4:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Potassium binding site 1 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 1 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K101

b:12.9
occ:1.00
 O A:HOH211 2.6 16.9 1.0
O A:HOH276 2.7 24.3 1.0
O A:HOH231 2.7 24.3 1.0
O6 A:G5 2.8 20.1 1.0
O A:HOH225 2.8 17.2 1.0
O A:HOH204 2.8 17.2 1.0
O A:HOH252 2.8 26.2 1.0
N7 A:G5 2.9 20.1 1.0
C6 A:G5 3.4 20.4 1.0
C5 A:G5 3.4 21.5 1.0
H5 A:C4 4.0 25.6 1.0
C8 A:G5 4.1 19.5 1.0
O A:HOH238 4.1 33.6 1.0
O A:HOH261 4.4 32.6 1.0
C5 A:C4 4.4 21.3 1.0
H42 B:C20 4.4 19.0 1.0
O A:HOH270 4.4 26.9 1.0
H41 A:C4 4.4 31.4 1.0
H8 A:G5 4.4 23.4 1.0
O A:HOH215 4.5 22.0 1.0
O6 A:G6 4.5 16.3 1.0
N7 A:G6 4.5 19.0 1.0
OP2 A:C4 4.6 24.9 1.0
O B:HOH279 4.6 30.7 1.0
O A:HOH255 4.6 19.4 1.0
N1 A:G5 4.7 19.7 1.0
C4 A:G5 4.7 21.1 1.0
N4 A:C4 4.7 26.2 1.0
OP2 A:C3 4.8 39.3 1.0
C4 A:C4 4.8 23.3 1.0
O B:HOH229 4.8 20.4 1.0

Potassium binding site 2 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 2 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K102

b:12.8
occ:0.49
 OP1 A:G18 2.7 18.7 1.0
O A:HOH243 2.8 25.8 1.0
O3' A:G17 3.0 13.4 1.0
P A:G18 3.4 16.6 1.0
O A:HOH206 3.9 18.7 1.0
H5'' A:G17 3.9 16.2 1.0
H5' A:G18 4.1 17.5 1.0
H5'' A:G18 4.1 17.5 1.0
H4' A:G17 4.1 16.3 1.0
C3' A:G17 4.2 12.8 1.0
C5' A:G18 4.4 14.6 1.0
O5' A:G18 4.4 14.9 1.0
C4' A:G17 4.5 13.6 1.0
OP2 A:G18 4.5 17.6 1.0
C5' A:G17 4.7 13.5 1.0
H3' A:G17 4.8 15.4 1.0
O2' A:G17 4.9 13.5 1.0

Potassium binding site 3 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 3 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K104

b:15.0
occ:1.00
 O B:HOH249 2.8 32.6 1.0
OP1 B:G17 2.9 18.7 1.0
O B:HOH273 3.1 31.5 1.0
O3' B:C16 3.5 12.2 1.0
P B:G17 3.8 14.9 1.0
HO2' B:C16 4.3 17.9 1.0
H5' B:G17 4.3 14.6 1.0
H5'' B:G17 4.5 14.6 1.0
H4' B:C16 4.6 17.8 1.0
C3' B:C16 4.7 13.6 1.0
C5' B:G17 4.8 12.2 1.0
O B:HOH230 4.8 21.0 1.0
O2' B:C16 4.8 14.9 1.0
O5' B:G17 4.9 11.7 1.0
O B:HOH209 4.9 27.4 1.0
OP2 B:G17 4.9 14.6 1.0

Potassium binding site 4 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 4 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K105

b:15.0
occ:1.00
 O A:HOH255 2.7 19.4 1.0
O B:HOH253 2.7 18.4 1.0
O B:HOH279 2.7 30.7 1.0
O A:HOH272 2.8 25.6 1.0
O B:HOH251 2.8 24.5 1.0
O A:HOH270 2.8 26.9 1.0
O B:HOH272 2.8 26.2 1.0
O B:HOH281 2.8 28.7 1.0
H41 A:C7 3.9 16.6 1.0
H5 B:C15 4.2 14.7 1.0
OP2 B:C15 4.4 14.3 1.0
O A:HOH264 4.4 24.8 1.0
H41 B:C15 4.5 17.6 1.0
O A:HOH225 4.5 17.2 1.0
O A:HOH276 4.6 24.3 1.0
O B:HOH255 4.6 22.4 1.0
O A:HOH251 4.6 26.6 1.0
N4 A:C7 4.8 13.8 1.0
K B:K107 4.8 38.7 1.0
C5 B:C15 4.8 12.3 1.0
O A:HOH215 4.8 22.0 1.0
O B:HOH242 5.0 13.6 1.0

Potassium binding site 5 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 5 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K106

b:18.4
occ:1.00
 CL B:CL111 2.4 20.6 1.0
O B:HOH217 2.7 31.9 1.0
O6 B:G5 2.7 26.6 1.0
O B:HOH223 2.8 39.6 1.0
O B:HOH280 2.8 31.5 1.0
O B:HOH236 2.8 33.0 1.0
O B:HOH224 2.8 21.0 1.0
N7 B:G5 2.9 28.2 1.0
C6 B:G5 3.3 27.0 1.0
C5 B:G5 3.4 27.5 1.0
H5 B:C4 3.6 39.4 1.0
C5 B:C4 4.0 32.8 1.0
H41 B:C4 4.0 35.0 1.0
C8 B:G5 4.0 29.3 1.0
O B:HOH202 4.1 30.6 1.0
O B:HOH274 4.2 31.3 1.0
H42 A:C20 4.3 24.2 1.0
OP2 B:C4 4.4 30.1 1.0
H8 B:G5 4.4 35.1 1.0
N4 B:C4 4.4 29.2 1.0
C4 B:C4 4.5 31.5 1.0
O6 B:G6 4.6 23.5 1.0
O B:HOH234 4.6 27.8 1.0
N1 B:G5 4.7 26.2 1.0
C4 B:G5 4.7 28.2 1.0
C6 B:C4 4.7 32.3 1.0
N7 B:G6 4.8 25.8 1.0
H6 B:C4 4.8 38.7 1.0
O B:HOH283 4.9 27.4 1.0
OP2 B:C3 5.0 29.6 1.0
H42 B:C4 5.0 35.0 1.0

Potassium binding site 6 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 6 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K107

b:38.7
occ:1.00
 O B:HOH277 2.7 21.9 1.0
O A:HOH270 2.8 26.9 1.0
O6 B:G17 2.8 10.6 1.0
O B:HOH213 3.0 18.0 1.0
O6 B:G18 3.0 11.1 1.0
O B:HOH229 3.1 20.4 1.0
H42 A:C8 3.5 16.3 1.0
H42 A:C7 3.6 16.6 1.0
O B:HOH226 3.7 11.6 1.0
C6 B:G17 3.7 8.9 1.0
O B:HOH272 3.7 26.2 1.0
O B:HOH242 3.7 13.6 1.0
O B:HOH255 3.9 22.4 1.0
C6 B:G18 3.9 10.7 1.0
N7 B:G17 4.0 10.7 1.0
H41 A:C7 4.1 16.6 1.0
H41 A:C8 4.1 16.3 1.0
N4 A:C8 4.1 13.6 1.0
C5 B:G17 4.2 9.0 1.0
N4 A:C7 4.2 13.8 1.0
O B:HOH253 4.3 18.4 1.0
N7 B:G18 4.3 9.5 1.0
C5 B:G18 4.5 10.5 1.0
O B:HOH228 4.5 20.1 1.0
O A:HOH211 4.6 16.9 1.0
OP2 B:C16 4.6 14.4 1.0
K B:K105 4.8 15.0 1.0
N1 B:G17 4.9 9.3 1.0
O A:HOH276 4.9 24.3 1.0
K B:K108 4.9 9.6 1.0

Potassium binding site 7 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 7 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K108

b:9.6
occ:1.00
 OP2 B:G17 2.6 14.6 1.0
O B:HOH228 2.7 20.1 1.0
O B:HOH277 2.7 21.9 1.0
O B:HOH231 2.7 21.5 1.0
O B:HOH215 2.8 20.1 1.0
O B:HOH275 2.8 32.9 1.0
O B:HOH213 2.8 18.0 1.0
P B:G17 3.9 14.9 1.0
O5' B:G17 4.1 11.7 1.0
H8 B:G17 4.3 11.2 1.0
O A:HOH261 4.4 32.6 1.0
O B:HOH230 4.4 21.0 1.0
OP2 B:G18 4.5 12.7 1.0
O B:HOH209 4.5 27.4 1.0
N7 B:G17 4.6 10.7 1.0
O B:HOH229 4.6 20.4 1.0
OP1 B:G17 4.6 18.7 1.0
OP2 B:C16 4.6 14.4 1.0
H3' B:C16 4.7 16.3 1.0
C8 B:G17 4.7 9.3 1.0
O B:HOH255 4.7 22.4 1.0
H3' B:G17 4.7 13.7 1.0
O B:HOH233 4.9 29.6 1.0
OP1 B:C16 4.9 20.6 1.0
K B:K107 4.9 38.7 1.0

Potassium binding site 8 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 8 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K109

b:29.2
occ:1.00
 O B:HOH208 2.7 26.3 1.0
O B:HOH212 2.7 31.9 1.0
O B:HOH247 2.8 26.9 1.0
O B:HOH244 4.2 26.5 1.0
MG B:MG103 4.2 41.8 1.0
O A:HOH279 4.5 20.7 1.0
OP2 B:C10 4.6 27.2 1.0
O B:HOH262 4.6 33.1 1.0
O B:HOH278 4.7 35.0 1.0
O6 B:G12 4.7 16.1 1.0
O B:HOH276 4.8 32.6 1.0
N7 B:G11 4.9 12.2 1.0

Potassium binding site 9 out of 9 in 5ew4

Go back to Potassium Binding Sites List in 5ew4
Potassium binding site 9 out of 9 in the Crystal Structure of C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+


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 C9ORF72 Antisense Ccccgg Repeat Rna Associated with Lou Gehrig'S Disease and Frontotemporal Dementia, Crystallized with SR2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K110

b:26.2
occ:1.00
 O A:HOH257 4.5 35.5 1.0
OP1 A:C4 4.5 31.4 1.0
O B:HOH279 4.6 30.7 1.0
OP2 B:C15 4.6 14.3 1.0
OP1 B:C15 4.6 17.5 1.0
OP1 B:C14 4.7 21.3 1.0
OP2 A:G5 4.8 24.2 1.0
H5'' B:C14 4.8 19.3 1.0

Reference:

D.W.Dodd, D.R.Tomchick, D.R.Corey, K.T.Gagnon. Pathogenic C9ORF72 Antisense Repeat Rna Forms A Double Helix with Tandem C:C Mismatches. Biochemistry V. 55 1283 2016.
ISSN: ISSN 0006-2960
PubMed: 26878348
DOI: 10.1021/ACS.BIOCHEM.6B00136
Page generated: Sun Dec 13 23:57:00 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy