Zinc in PDB 5d7o: Crystal Structure of SIRT2-Adpr at An Improved Resolution

The structure of Crystal Structure of SIRT2-Adpr at An Improved Resolution, PDB code: 5d7o was solved by T.Rumpf, S.Gerhardt, O.Einsle, M.Jung, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.71 / 1.63
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	78.000, 78.170, 114.241, 90.00, 90.00, 90.00
R / Rfree (%)	17.1 / 19.1

The binding sites of Zinc atom in the Crystal Structure of SIRT2-Adpr at An Improved Resolution (pdb code 5d7o). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of SIRT2-Adpr at An Improved Resolution, PDB code: 5d7o:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of SIRT2-Adpr at An Improved Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of SIRT2-Adpr at An Improved Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:33.8 occ:1.00 SG A:CYS195 2.3 31.9 1.0 SG A:CYS200 2.3 39.9 1.0 SG A:CYS221 2.3 32.7 1.0 SG A:CYS224 2.3 35.5 1.0 CB A:CYS200 3.2 40.6 1.0 CB A:CYS221 3.2 33.0 1.0 CB A:CYS195 3.3 32.2 1.0 CB A:CYS224 3.5 35.4 1.0 N A:CYS224 3.9 36.0 1.0 CA A:CYS224 4.2 35.4 1.0 CB A:HIS202 4.4 45.5 1.0 CB A:ASP223 4.6 40.0 1.0 N A:HIS202 4.6 43.8 1.0 CA A:CYS200 4.6 42.2 1.0 N A:ARG201 4.6 43.4 1.0 CA A:CYS195 4.7 31.8 1.0 CA A:CYS221 4.7 33.2 1.0 CB A:SER226 4.8 28.9 1.0 C A:CYS224 4.8 34.4 1.0 C A:CYS200 4.8 42.6 1.0 CB A:SER197 4.9 38.9 1.0 C A:ASP223 4.9 38.0 1.0 N A:SER226 5.0 30.0 1.0 N A:GLN225 5.0 32.7 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of SIRT2-Adpr at An Improved Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of SIRT2-Adpr at An Improved Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:35.7 occ:1.00 SG B:CYS221 2.3 38.1 1.0 SG B:CYS200 2.3 39.2 1.0 SG B:CYS195 2.3 36.2 1.0 SG B:CYS224 2.3 39.5 1.0 CB B:CYS200 3.2 41.1 1.0 CB B:CYS195 3.2 36.1 1.0 CB B:CYS221 3.2 38.7 1.0 CB B:CYS224 3.4 40.5 1.0 N B:CYS224 3.9 42.6 1.0 CA B:CYS224 4.2 41.8 1.0 CB B:HIS202 4.3 46.0 1.0 N B:HIS202 4.4 45.0 1.0 N B:ARG201 4.5 44.4 1.0 CA B:CYS200 4.6 42.9 1.0 CB B:SER197 4.6 42.6 1.0 CA B:CYS195 4.7 35.6 1.0 CB B:ASP223 4.7 45.5 1.0 CA B:CYS221 4.7 39.4 1.0 C B:CYS224 4.7 42.1 1.0 C B:CYS200 4.8 43.7 1.0 CB B:SER226 4.9 39.9 1.0 N B:GLN225 5.0 42.5 1.0

T.Rumpf, S.Gerhardt, O.Einsle, M.Jung. Seeding For Sirtuins: Microseed Matrix Seeding to Obtain Crystals of Human SIRT3 and SIRT2 Suitable For Soaking. Acta Crystallogr.,Sect.F V. 71 1498 2015.
ISSN: ESSN 2053-230X
PubMed: 26625292
DOI: 10.1107/S2053230X15019986