Zinc in PDB 9dtt: Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla)

All present enzymatic activity of Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla):
2.1.1.56; 2.1.1.57; 2.7.7.48;

The binding sites of Zinc atom in the Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla) (pdb code 9dtt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla), PDB code: 9dtt:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:74.0 occ:1.00 CB A:CYS447 2.3 65.8 1.0 SG A:CYS450 2.3 59.8 1.0 NE2 A:HIS442 2.3 64.6 1.0 SG A:CYS447 2.3 65.8 1.0 CE1 A:HIS442 2.8 64.6 1.0 OE1 A:GLU438 2.9 58.1 1.0 CD2 A:HIS442 3.3 64.6 1.0 CA A:CYS447 3.5 65.8 1.0 CD A:GLU438 3.8 58.1 1.0 ND1 A:HIS442 3.9 64.6 1.0 CB A:CYS450 3.9 59.8 1.0 OE2 A:GLU438 4.0 58.1 1.0 O A:THR449 4.1 58.2 1.0 CG A:HIS442 4.2 64.6 1.0 N A:GLU448 4.2 57.5 1.0 C A:CYS447 4.3 65.8 1.0 C A:THR449 4.4 58.2 1.0 N A:THR449 4.6 58.2 1.0 N A:CYS447 4.6 65.8 1.0 N A:CYS450 4.7 59.8 1.0 OG1 A:THR572 4.7 60.2 1.0 CA A:CYS450 4.8 59.8 1.0 O A:LYS446 4.9 70.1 1.0 CB A:LEU571 5.0 57.2 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of DENV2 NS5 in Complex with Stem Loop A (Sla) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:91.7 occ:1.00 NE2 A:HIS714 2.0 78.5 1.0 NE2 A:HIS712 2.0 79.2 1.0 CD2 A:HIS714 2.3 78.5 1.0 SG A:CYS847 2.3 89.4 1.0 SG A:CYS728 2.3 82.3 1.0 CE1 A:HIS712 2.8 79.2 1.0 CB A:CYS728 2.8 82.3 1.0 CD2 A:HIS712 3.1 79.2 1.0 CB A:CYS847 3.2 89.4 1.0 CE1 A:HIS714 3.3 78.5 1.0 CG A:HIS714 3.6 78.5 1.0 ND1 A:HIS712 4.0 79.2 1.0 ND1 A:HIS714 4.1 78.5 1.0 CA A:CYS728 4.1 82.3 1.0 CG A:HIS712 4.1 79.2 1.0 C A:CYS728 4.2 82.3 1.0 N A:ARG729 4.4 83.4 1.0 CE1 A:HIS768 4.5 85.3 1.0 O A:CYS728 4.6 82.3 1.0 CA A:CYS847 4.6 89.4 1.0 NE2 A:HIS768 4.7 85.3 1.0 OE1 A:GLN705 4.7 75.4 1.0 O A:HIS712 4.8 79.2 1.0 CB A:HIS714 4.8 78.5 1.0 O A:ARG729 4.9 83.4 1.0 NE2 A:GLN705 4.9 75.4 1.0

J.O.Obi, K.C.Kihn, L.Mcqueen, J.K.Fields, G.A.Snyder, D.J.Deredge. Structural Dynamics of the Dengue Virus Non-Structural 5 (NS5) Interactions with Viral Synthesis Promoter Stem Loop A (Sla) To Be Published.