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Fluorine in PDB 5y2f: Human SIRT6 in Complex with Allosteric Activator Mdl-801

Protein crystallography data

The structure of Human SIRT6 in Complex with Allosteric Activator Mdl-801, PDB code: 5y2f was solved by J.Zhang, Z.Huang, K.Song, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 114.85 / 2.53
Space group P 41 3 2
Cell size a, b, c (Å), α, β, γ (°) 162.422, 162.422, 162.422, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 21.7

Other elements in 5y2f:

The structure of Human SIRT6 in Complex with Allosteric Activator Mdl-801 also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Bromine (Br) 1 atom
Chlorine (Cl) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Human SIRT6 in Complex with Allosteric Activator Mdl-801 (pdb code 5y2f). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total only one binding site of Fluorine was determined in the Human SIRT6 in Complex with Allosteric Activator Mdl-801, PDB code: 5y2f:

Fluorine binding site 1 out of 1 in 5y2f

Go back to Fluorine Binding Sites List in 5y2f
Fluorine binding site 1 out of 1 in the Human SIRT6 in Complex with Allosteric Activator Mdl-801


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Human SIRT6 in Complex with Allosteric Activator Mdl-801 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F402

b:0.2
occ:1.00
F1 A:8L9402 0.0 0.2 1.0
C39 A:8L9402 1.3 0.6 1.0
C40 A:8L9402 2.4 0.3 1.0
C38 A:8L9402 2.4 1.0 1.0
BR1 A:8L9402 3.1 0.6 1.0
C42 A:8L9402 3.7 0.7 1.0
C36 A:8L9402 3.7 0.8 1.0
O A:HOH590 4.1 84.5 1.0
C35 A:8L9402 4.2 0.4 1.0
C43 A:8L9402 4.8 0.5 1.0
CA A:GLY153 4.9 53.4 1.0

Reference:

Z.Huang, J.Zhao, W.Deng, Y.Chen, J.Shang, K.Song, L.Zhang, C.Wang, S.Lu, X.Yang, B.He, J.Min, H.Hu, M.Tan, J.Xu, Q.Zhang, J.Zhong, X.Sun, Z.Mao, H.Lin, M.Xiao, Y.E.Chin, H.Jiang, Y.Xu, G.Chen, J.Zhang. Identification of A Cellularly Active SIRT6 Allosteric Activator. Nat. Chem. Biol. V. 14 1118 2018.
ISSN: ESSN 1552-4469
PubMed: 30374165
DOI: 10.1038/S41589-018-0150-0
Page generated: Tue Jul 15 09:20:14 2025

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