Zinc in PDB 6izx: The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678

The structure of The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678, PDB code: 6izx was solved by H.Shimizu, S.Sekine, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	55.74 / 2.43
Space group	I 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	236.500, 236.500, 236.500, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 23.1

The structure of The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678 also contains other interesting chemical elements:

Cobalt

(Co)

9 atoms

The binding sites of Zinc atom in the The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678 (pdb code 6izx). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678, PDB code: 6izx:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:53.0 occ:1.00 NE2 A:HIS442 2.0 50.9 1.0 OE2 A:GLU438 2.2 52.4 1.0 SG A:CYS447 2.2 39.1 1.0 SG A:CYS450 2.4 41.9 1.0 CE1 A:HIS442 3.0 48.7 1.0 CD2 A:HIS442 3.0 47.9 1.0 CD A:GLU438 3.1 50.5 1.0 CB A:CYS450 3.2 46.2 1.0 CB A:CYS447 3.4 49.9 1.0 CG A:GLU438 3.4 49.2 1.0 CA A:CYS447 3.8 45.9 1.0 N A:CYS450 3.8 42.7 1.0 N A:GLU448 4.0 46.4 1.0 ND1 A:HIS442 4.1 49.7 1.0 CG A:HIS442 4.1 50.8 1.0 CA A:CYS450 4.1 47.1 1.0 OE1 A:GLU438 4.2 54.9 1.0 CG2 A:THR572 4.3 48.9 1.0 C A:CYS447 4.4 50.8 1.0 N A:THR449 4.4 43.7 1.0 C A:THR449 4.8 45.9 1.0 O A:LYS446 4.8 50.5 1.0 OG1 A:THR449 4.9 56.2 1.0 CB A:GLU438 5.0 49.2 1.0

Zinc binding site 2 out of 2 in the The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Rna-Dependent Rna Polymerase Domain of Dengue 2 NS5, Bound with Rk-0404678 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:0.9 occ:1.00 SG A:CYS728 2.6 69.7 1.0 NE2 A:HIS714 3.5 83.3 1.0 CB A:CYS728 3.8 45.5 1.0 CD2 A:HIS714 4.0 69.5 1.0 CE1 A:HIS714 4.7 65.1 1.0 CA A:CYS728 4.9 39.4 1.0 O A:GLU843 5.0 74.6 1.0 C A:CYS728 5.0 42.6 1.0

H.Shimizu, S.Sekine. Rk-0404678 Bound Form of DENV2 Rdrp To Be Published.