Zinc in PDB 5xhs: Crystal Structure of SIRT5 Complexed with A Fluorogenic Small-Molecule Substrate Subka

The structure of Crystal Structure of SIRT5 Complexed with A Fluorogenic Small-Molecule Substrate Subka, PDB code: 5xhs was solved by Y.Yu, B.Li, Q.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.90 / 2.19
Space group	P 21 2 21
Cell size a, b, c (Å), α, β, γ (°)	42.130, 55.274, 124.303, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 22.4

The binding sites of Zinc atom in the Crystal Structure of SIRT5 Complexed with A Fluorogenic Small-Molecule Substrate Subka (pdb code 5xhs). 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 Crystal Structure of SIRT5 Complexed with A Fluorogenic Small-Molecule Substrate Subka, PDB code: 5xhs:

Zinc binding site 1 out of 1 in the Crystal Structure of SIRT5 Complexed with A Fluorogenic Small-Molecule Substrate Subka


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 SIRT5 Complexed with A Fluorogenic Small-Molecule Substrate Subka within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn404 b:38.5 occ:1.00 SG A:CYS212 2.3 40.9 1.0 SG A:CYS169 2.3 36.5 1.0 SG A:CYS166 2.4 34.9 1.0 SG A:CYS207 2.4 37.2 1.0 HB2 A:CYS166 2.8 37.7 1.0 HB2 A:CYS207 2.9 44.9 1.0 CB A:CYS166 2.9 31.4 1.0 H A:CYS169 3.0 35.9 1.0 HB3 A:CYS166 3.0 37.7 1.0 CB A:CYS207 3.0 37.4 1.0 HB3 A:CYS212 3.0 43.1 1.0 HB3 A:CYS207 3.1 44.9 1.0 CB A:CYS212 3.2 36.0 1.0 HB3 A:CYS169 3.2 37.3 1.0 CB A:CYS169 3.3 31.1 1.0 HB2 A:CYS212 3.4 43.1 1.0 HB2 A:GLU209 3.7 48.8 1.0 N A:CYS169 3.7 29.9 1.0 H A:GLY214 3.7 46.6 1.0 HB2 A:SER168 3.8 44.6 1.0 CA A:CYS169 4.1 33.0 1.0 HB2 A:CYS169 4.1 37.3 1.0 HG3 A:GLU209 4.3 47.7 1.0 HB A:VAL171 4.3 39.3 1.0 H A:VAL171 4.4 36.6 1.0 CA A:CYS166 4.4 36.1 1.0 H A:SER168 4.4 39.8 1.0 CA A:CYS207 4.5 37.1 1.0 N A:GLY214 4.5 38.8 1.0 H A:GLY213 4.5 55.2 1.0 CB A:GLU209 4.5 40.7 1.0 CA A:CYS212 4.6 44.5 1.0 HA3 A:GLY214 4.6 51.8 1.0 H A:GLU209 4.6 42.7 1.0 H A:GLY170 4.6 46.6 1.0 HA A:CYS166 4.7 43.3 1.0 HG2 A:GLU209 4.7 47.7 1.0 CG A:GLU209 4.7 39.8 1.0 CB A:SER168 4.8 37.2 1.0 HA A:CYS207 4.8 44.5 1.0 N A:GLY213 4.8 46.0 1.0 HG23 A:VAL171 4.8 48.0 1.0 C A:CYS169 4.8 32.3 1.0 C A:SER168 4.9 35.9 1.0 C A:CYS212 4.9 44.4 1.0 HA A:CYS212 4.9 53.5 1.0 HA A:CYS169 4.9 39.6 1.0 O A:HOH628 4.9 20.5 0.4 N A:GLY170 5.0 38.9 1.0 HB3 A:GLU209 5.0 48.8 1.0

H.L.Wang, S.Liu, Z.J.Yu, C.Wu, L.Cheng, Y.Wang, K.Chen, S.Zhou, Q.Chen, Y.Yu, G.B.Li. Interactions Between Sirtuins and Fluorogenic Small-Molecule Substrates Offer Insights Into Inhibitor Design Rsc Adv V. 7 36214 2017.
ISSN: ESSN 2046-2069
DOI: 10.1039/C7RA05824A