Zinc in PDB 6izz: The Rna-Dependent Rna Polymerase Domain of Dengue 3 NS5, Bound with Rk-0404678

The structure of The Rna-Dependent Rna Polymerase Domain of Dengue 3 NS5, Bound with Rk-0404678, PDB code: 6izz 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)	56.15 / 1.97
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	164.040, 179.290, 58.270, 90.00, 90.00, 90.00
R / Rfree (%)	22.3 / 25.5

The binding sites of Zinc atom in the The Rna-Dependent Rna Polymerase Domain of Dengue 3 NS5, Bound with Rk-0404678 (pdb code 6izz). 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 3 NS5, Bound with Rk-0404678, PDB code: 6izz:
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 3 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 3 NS5, Bound with Rk-0404678 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:50.0 occ:1.00 NE2 A:HIS441 2.1 51.6 1.0 OE2 A:GLU437 2.1 47.5 1.0 SG A:CYS449 2.2 50.0 1.0 SG A:CYS446 2.3 46.8 1.0 CE1 A:HIS441 3.1 44.1 1.0 CD2 A:HIS441 3.1 46.9 1.0 CB A:CYS449 3.1 50.1 1.0 CD A:GLU437 3.2 53.4 1.0 CB A:CYS446 3.4 44.7 1.0 CG A:GLU437 3.6 47.6 1.0 CA A:CYS446 3.8 50.8 1.0 N A:CYS449 3.9 53.2 1.0 N A:GLY447 4.0 50.0 1.0 CA A:CYS449 4.1 51.1 1.0 ND1 A:HIS441 4.2 44.8 1.0 CG A:HIS441 4.2 40.3 1.0 OE1 A:GLU437 4.3 51.9 1.0 C A:CYS446 4.3 50.9 1.0 N A:SER448 4.4 56.2 1.0 O A:HOH1050 4.7 50.3 1.0 C A:SER448 4.8 58.1 1.0 O A:LYS445 5.0 49.6 1.0

Zinc binding site 2 out of 2 in the The Rna-Dependent Rna Polymerase Domain of Dengue 3 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 3 NS5, Bound with Rk-0404678 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:35.3 occ:1.00 NE2 A:HIS714 2.0 36.4 1.0 NE2 A:HIS712 2.2 35.1 1.0 SG A:CYS728 2.2 36.3 1.0 SG A:CYS847 2.3 36.4 1.0 CD2 A:HIS714 3.0 32.7 1.0 CE1 A:HIS714 3.1 38.8 1.0 CB A:CYS728 3.1 27.3 1.0 CD2 A:HIS712 3.1 30.7 1.0 CE1 A:HIS712 3.1 28.5 1.0 CB A:CYS847 3.3 33.3 1.0 CG A:HIS714 4.1 33.7 1.0 ND1 A:HIS714 4.1 36.7 1.0 ND1 A:HIS712 4.2 34.1 1.0 CD1 A:LEU839 4.3 45.4 1.0 CG A:HIS712 4.3 34.2 1.0 CA A:CYS728 4.4 31.3 1.0 O A:HOH1276 4.4 45.3 1.0 C A:CYS728 4.5 33.7 1.0 O A:HOH1273 4.5 47.5 1.0 N A:ARG729 4.7 32.4 1.0 CA A:CYS847 4.7 32.7 1.0 NH2 A:ARG769 4.8 29.0 1.0 O A:HOH1295 4.9 63.4 1.0

H.Shimizu, S.Sekine. The Rna-Dependent Rna Polymerase Domain of Dengue 3 NS5, Bound with Rk-0404678 To Be Published.