Zinc in PDB 6ty0: Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1

Protein crystallography data

The structure of Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1, PDB code: 6ty0 was solved by F.Vignols, F.Hoh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 112.94 / 2.10
Space group F 41 3 2 1
Cell size a, b, c (Å), α, β, γ (°) 195.612, 195.612, 195.612, 90, 90, 90
R / Rfree (%) 18.4 / 21.4

Zinc Binding Sites:

The binding sites of Zinc atom in the Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1 (pdb code 6ty0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1, PDB code: 6ty0:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 6ty0

Go back to Zinc Binding Sites List in 6ty0
Zinc binding site 1 out of 3 in the Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:36.9
occ:1.00
SG A:CYS64 2.3 35.2 1.0
SG A:CYS67 2.3 37.3 1.0
SG A:CYS95 2.4 41.8 1.0
SG A:CYS92 2.4 38.1 1.0
CB A:CYS64 3.1 37.0 1.0
CB A:CYS95 3.3 43.4 1.0
CB A:CYS67 3.4 40.1 1.0
CB A:CYS92 3.5 35.9 1.0
N A:CYS67 3.6 45.0 1.0
CA A:CYS67 4.0 40.3 1.0
N A:CYS92 4.1 33.7 1.0
N A:CYS95 4.3 44.3 1.0
CA A:CYS92 4.3 35.7 1.0
O A:HOH304 4.4 44.0 1.0
CA A:CYS95 4.4 43.8 1.0
CB A:GLN66 4.4 50.9 1.0
CB A:ALA69 4.5 30.4 1.0
C A:GLN66 4.6 49.8 1.0
CA A:CYS64 4.6 35.6 1.0
C A:CYS67 4.6 43.2 1.0
C A:CYS92 4.8 41.1 1.0
N A:GLN66 4.9 46.1 1.0
CA A:GLN66 4.9 49.3 1.0
O A:CYS92 4.9 36.0 1.0
O A:CYS67 5.0 50.0 1.0

Zinc binding site 2 out of 3 in 6ty0

Go back to Zinc Binding Sites List in 6ty0
Zinc binding site 2 out of 3 in the Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn201

b:56.6
occ:1.00
SG B:CYS67 2.1 55.9 1.0
SG B:CYS64 2.3 58.0 1.0
SG B:CYS92 2.3 50.2 1.0
SG B:CYS95 2.4 62.3 1.0
CB B:CYS64 3.1 52.4 1.0
CB B:CYS95 3.1 65.0 1.0
CB B:CYS67 3.3 55.3 1.0
CB B:CYS92 3.3 53.0 1.0
N B:CYS67 3.6 64.4 1.0
CA B:CYS67 4.0 56.6 1.0
N B:CYS92 4.0 46.7 1.0
N B:CYS95 4.1 69.8 1.0
CA B:CYS92 4.2 48.7 1.0
CA B:CYS95 4.2 63.3 1.0
CB B:GLN66 4.5 69.8 1.0
CA B:CYS64 4.5 51.9 1.0
C B:CYS67 4.6 59.0 1.0
CB B:ALA69 4.6 44.7 1.0
C B:GLN66 4.7 68.6 1.0
N B:GLN66 4.8 60.6 1.0
C B:CYS92 4.8 60.4 1.0
CA B:GLN66 4.9 68.2 1.0
O B:CYS92 4.9 56.8 1.0

Zinc binding site 3 out of 3 in 6ty0

Go back to Zinc Binding Sites List in 6ty0
Zinc binding site 3 out of 3 in the Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn202

b:66.9
occ:0.50
O A:HOH336 2.8 41.7 1.0
NE2 B:HIS70 3.7 39.0 1.0
NE2 A:HIS70 3.9 30.6 1.0
CD2 B:HIS70 4.1 38.8 1.0
CD2 A:HIS70 4.2 33.0 1.0
O A:HOH315 4.5 33.7 1.0
O A:HOH372 4.7 43.1 0.5
CB B:TYR72 4.7 36.8 1.0
CE1 B:HIS70 4.9 39.7 1.0

Reference:

F.Vignols, F.Hoh. Nt Part Crystal Structure of the Rymv-Encoded Viral Rna Silencing Suppressor P1 To Be Published.
Page generated: Wed Mar 3 16:11:31 2021

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy