Zinc in PDB 5ojn: Sirtuin 4 From Xenopus Tropicalis in Complex with Thioacetyl-Adp- Ribose

The structure of Sirtuin 4 From Xenopus Tropicalis in Complex with Thioacetyl-Adp- Ribose, PDB code: 5ojn was solved by M.Pannek, C.Steegborn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.74 / 1.80
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	68.970, 74.880, 109.550, 90.00, 90.00, 90.00
R / Rfree (%)	15.5 / 20.9

The binding sites of Zinc atom in the Sirtuin 4 From Xenopus Tropicalis in Complex with Thioacetyl-Adp- Ribose (pdb code 5ojn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Sirtuin 4 From Xenopus Tropicalis in Complex with Thioacetyl-Adp- Ribose, PDB code: 5ojn:

Zinc binding site 1 out of 1 in the Sirtuin 4 From Xenopus Tropicalis in Complex with Thioacetyl-Adp- Ribose


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Sirtuin 4 From Xenopus Tropicalis in Complex with Thioacetyl-Adp- Ribose within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:34.0 occ:1.00 SG A:CYS171 2.3 35.4 1.0 SG A:CYS168 2.3 33.9 1.0 SG A:CYS222 2.3 37.6 1.0 SG A:CYS219 2.3 34.8 1.0 CB A:CYS219 3.1 31.9 1.0 CB A:CYS168 3.1 34.4 1.0 CB A:CYS171 3.4 36.6 1.0 CB A:CYS222 3.4 37.6 1.0 N A:CYS171 3.6 37.5 1.0 N A:CYS222 3.9 37.6 1.0 CA A:CYS171 4.1 39.2 1.0 CA A:CYS222 4.2 36.9 1.0 N A:GLY224 4.4 30.8 1.0 CB A:LYS221 4.5 44.2 1.0 CA A:CYS168 4.5 32.0 1.0 CA A:CYS219 4.6 29.3 1.0 C A:GLY170 4.6 42.4 1.0 CA A:GLY224 4.7 32.6 1.0 N A:GLY223 4.7 34.3 1.0 C A:CYS222 4.7 37.1 1.0 C A:LYS221 4.7 41.1 1.0 CA A:GLY170 4.8 40.3 1.0 O A:HOH668 4.9 32.0 1.0 C A:CYS171 4.9 36.8 1.0 N A:GLY170 4.9 36.9 1.0 O A:HOH657 5.0 54.7 1.0 OG1 A:THR173 5.0 37.8 1.0 N A:LYS221 5.0 37.2 1.0

M.Pannek, Z.Simic, M.Fuszard, M.Meleshin, D.Rotili, A.Mai, M.Schutkowski, C.Steegborn. Crystal Structures of the Mitochondrial Deacylase Sirtuin 4 Reveal Isoform-Specific Acyl Recognition and Regulation Features. Nat Commun V. 8 1513 2017.
ISSN: ESSN 2041-1723
PubMed: 29138502
DOI: 10.1038/S41467-017-01701-2