Zinc in PDB 5mf6: Human SIRT6 in Complex with Activator UBCS039

The structure of Human SIRT6 in Complex with Activator UBCS039, PDB code: 5mf6 was solved by C.Steegborn, W.You, C.Kambach, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.65 / 1.87
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	91.300, 91.300, 144.317, 90.00, 90.00, 120.00
R / Rfree (%)	19 / 22

The binding sites of Zinc atom in the Human SIRT6 in Complex with Activator UBCS039 (pdb code 5mf6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Human SIRT6 in Complex with Activator UBCS039, PDB code: 5mf6:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Human SIRT6 in Complex with Activator UBCS039


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human SIRT6 in Complex with Activator UBCS039 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:38.5 occ:1.00 SG A:CYS166 2.3 35.5 1.0 SG A:CYS141 2.3 37.4 1.0 SG A:CYS144 2.3 39.5 1.0 SG A:CYS177 2.4 46.1 1.0 CB A:CYS166 3.1 33.2 1.0 CB A:CYS141 3.2 34.2 1.0 CB A:CYS177 3.3 50.9 1.0 CB A:CYS144 3.4 42.0 1.0 N A:CYS144 3.7 44.9 1.0 CA A:CYS144 4.1 40.2 1.0 N A:GLY179 4.5 46.6 1.0 CA A:CYS166 4.5 32.2 1.0 CG2 A:VAL168 4.6 38.2 1.0 CB A:VAL168 4.7 40.5 1.0 CA A:CYS141 4.7 32.6 1.0 CA A:CYS177 4.7 47.8 1.0 CB A:LYS143 4.7 57.2 1.0 CA A:GLY179 4.8 41.7 1.0 C A:CYS144 4.8 39.1 1.0 C A:LYS143 4.8 45.1 1.0 CB A:THR146 4.9 33.4 1.0 OG1 A:THR146 4.9 37.2 1.0 N A:LYS145 5.0 40.8 1.0

Zinc binding site 2 out of 2 in the Human SIRT6 in Complex with Activator UBCS039


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human SIRT6 in Complex with Activator UBCS039 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn402 b:51.6 occ:1.00 SG B:CYS141 2.3 51.9 1.0 SG B:CYS144 2.3 53.8 1.0 SG B:CYS166 2.3 52.5 1.0 SG B:CYS177 2.4 54.4 1.0 CB B:CYS166 3.0 44.8 1.0 CB B:CYS141 3.2 51.0 1.0 CB B:CYS144 3.2 58.3 1.0 N B:CYS144 3.6 56.1 1.0 CB B:CYS177 3.6 61.4 1.0 CA B:CYS144 4.0 54.6 1.0 N B:GLY179 4.4 50.3 1.0 CA B:CYS166 4.5 42.1 1.0 CB B:LYS143 4.6 62.5 1.0 C B:LYS143 4.7 54.1 1.0 CA B:CYS141 4.7 50.4 1.0 C B:CYS144 4.7 54.2 1.0 CA B:GLY179 4.8 50.1 1.0 N B:LYS145 4.9 58.0 1.0 OG1 B:THR146 4.9 54.3 1.0 CA B:LYS143 4.9 57.7 1.0 CG2 B:VAL168 4.9 55.4 1.0 CA B:CYS177 5.0 56.9 1.0

W.You, D.Rotili, T.M.Li, C.Kambach, M.Meleshin, M.Schutkowski, K.F.Chua, A.Mai, C.Steegborn. Structural Basis of Sirtuin 6 Activation By Synthetic Small Molecules. Angew. Chem. Int. Ed. Engl. V. 56 1007 2017.
ISSN: ESSN 1521-3773
PubMed: 27990725
DOI: 10.1002/ANIE.201610082