Zinc in PDB 5fy4: Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate

The structure of Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate, PDB code: 5fy4 was solved by R.Nowak, V.Srikannathasan, C.Johansson, C.Gileadi, K.Kupinska, C.Strain-Damerell, A.Szykowska, F.Von Delft, N.A.Burgess-Brown, C.H.Arrowsmith, C.Bountra, A.M.Edwards, U.Oppermann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	71.07 / 2.10
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	142.140, 142.140, 152.100, 90.00, 90.00, 120.00
R / Rfree (%)	19.3 / 19.3

The structure of Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate also contains other interesting chemical elements:

Manganese

(Mn)

5 atoms

The binding sites of Zinc atom in the Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate (pdb code 5fy4). 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 the Catalytic Domain of Human JARID1B in Complex with Succinate, PDB code: 5fy4:

Zinc binding site 1 out of 1 in the Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate


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 the Catalytic Domain of Human JARID1B in Complex with Succinate within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1754 b:42.1 occ:1.00 ND1 A:HIS718 2.1 54.3 1.0 SG A:CYS692 2.2 39.7 1.0 SG A:CYS715 2.3 41.8 1.0 SG A:CYS695 2.4 45.5 1.0 CE1 A:HIS718 2.9 56.6 1.0 CB A:CYS692 3.1 39.3 1.0 CG A:HIS718 3.2 52.2 1.0 CB A:CYS695 3.4 44.1 1.0 CB A:CYS715 3.5 38.5 1.0 CB A:HIS718 3.7 42.2 1.0 N A:CYS695 3.7 49.6 1.0 N A:CYS715 3.8 38.2 1.0 NE2 A:HIS718 4.1 62.1 1.0 CA A:CYS695 4.1 45.4 1.0 CA A:CYS715 4.2 39.3 1.0 CD2 A:HIS718 4.2 50.9 1.0 CG2 A:THR697 4.4 42.2 1.0 CB A:LYS694 4.5 43.7 1.0 CA A:CYS692 4.5 40.4 1.0 N A:HIS718 4.5 42.7 1.0 CD A:ARG619 4.6 51.8 1.0 O A:CYS715 4.7 36.9 1.0 C A:CYS715 4.7 35.7 1.0 CA A:HIS718 4.8 45.4 1.0 C A:LYS694 4.8 56.4 1.0 CB A:HIS717 4.8 41.3 1.0 C A:CYS695 4.9 43.2 1.0 C A:VAL714 4.9 42.4 1.0 CG A:ARG619 4.9 56.4 1.0 CG A:LYS694 5.0 55.9 1.0

R.Nowak, V.Srikannathasan, C.Johansson, C.Gileadi, K.Kupinska, C.Strain-Damerell, A.Szykowska, F.Von Delft, N.A.Burgess-Brown, C.H.Arrowsmith, C.Bountra, A.M.Edwards, U.Oppermann. Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Succinate To Be Published.