Zinc in PDB 6xd0: Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434

The structure of Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434, PDB code: 6xd0 was solved by R.Arora, T.E.Benson, C.W.Liew, J.Lescar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.01
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	161.660, 176.240, 57.760, 90.00, 90.00, 90.00
R / Rfree (%)	17.5 / 19.4

The structure of Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434 also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Zinc atom in the Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434 (pdb code 6xd0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434, PDB code: 6xd0:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:36.8 occ:1.00 NE2 A:HIS712 2.0 38.1 1.0 NE2 A:HIS714 2.1 36.6 1.0 SG A:CYS728 2.3 35.6 1.0 SG A:CYS847 3.0 45.7 1.0 CE1 A:HIS714 3.0 37.6 1.0 CE1 A:HIS712 3.0 38.1 1.0 CD2 A:HIS712 3.0 37.0 1.0 CB A:CYS728 3.1 31.1 1.0 CD2 A:HIS714 3.1 35.6 1.0 CB A:CYS847 3.8 40.5 1.0 CG A:HIS712 4.1 37.0 1.0 ND1 A:HIS712 4.1 38.2 1.0 CD1 A:LEU839 4.1 42.1 1.0 ND1 A:HIS714 4.1 38.6 1.0 CG A:HIS714 4.2 36.1 1.0 CA A:CYS728 4.4 31.2 1.0 O A:HOH1386 4.6 65.6 1.0 C A:CYS728 4.6 32.4 1.0 NH2 A:ARG769 4.7 33.9 1.0 N A:ARG729 4.8 33.6 1.0

Zinc binding site 2 out of 2 in the Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1007 b:41.5 occ:1.00 OE1 A:GLU437 2.0 49.6 1.0 NE2 A:HIS441 2.1 43.4 1.0 SG A:CYS449 2.2 45.5 1.0 SG A:CYS446 2.3 44.4 1.0 CD A:GLU437 3.0 47.8 1.0 CD2 A:HIS441 3.1 42.1 1.0 CE1 A:HIS441 3.1 43.3 1.0 CB A:CYS449 3.2 46.2 1.0 CB A:CYS446 3.4 44.2 1.0 CG A:GLU437 3.5 43.7 1.0 N A:CYS449 3.7 48.2 1.0 CA A:CYS446 3.8 45.7 1.0 CA A:CYS449 4.0 47.3 1.0 OE2 A:GLU437 4.1 48.9 1.0 N A:GLY447 4.2 46.2 1.0 CG A:HIS441 4.2 41.5 1.0 ND1 A:HIS441 4.2 42.5 1.0 N A:SER448 4.4 48.7 1.0 C A:CYS446 4.4 46.3 1.0 C A:SER448 4.7 49.5 1.0 O A:HOH1238 4.8 54.7 1.0 O A:HOH1182 4.8 42.8 1.0 CG2 A:THR571 4.8 43.4 1.0 O A:LYS445 4.9 47.1 1.0 CD1 A:LEU483 5.0 39.3 1.0

R.Arora, T.E.Benson, C.W.Liew, J.Lescar. Dengue Serotype 3 Rna-Dependent Rna Polymerase Bound to Nitd-434 To Be Published.