Zinc in PDB 6f5t: Crystal Structure of KDM4D with Tetrazole Ligand GF057

The structure of Crystal Structure of KDM4D with Tetrazole Ligand GF057, PDB code: 6f5t was solved by P.H.Malecki, A.Link, M.S.Weiss, U.Heinemann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.41 / 1.58
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	72.213, 72.213, 152.078, 90.00, 90.00, 90.00
R / Rfree (%)	17.8 / 19.8

The structure of Crystal Structure of KDM4D with Tetrazole Ligand GF057 also contains other interesting chemical elements:

Nickel

(Ni)

1 atom

The binding sites of Zinc atom in the Crystal Structure of KDM4D with Tetrazole Ligand GF057 (pdb code 6f5t). 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 KDM4D with Tetrazole Ligand GF057, PDB code: 6f5t:

Zinc binding site 1 out of 1 in the Crystal Structure of KDM4D with Tetrazole Ligand GF057


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 KDM4D with Tetrazole Ligand GF057 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:30.8 occ:1.00 NE2 A:HIS244 2.2 31.7 1.0 SG A:CYS310 2.2 32.5 1.0 SG A:CYS238 2.3 32.7 1.0 SG A:CYS312 2.3 33.0 1.0 CB A:CYS238 3.1 41.1 1.0 CE1 A:HIS244 3.1 29.8 1.0 CD2 A:HIS244 3.2 30.4 1.0 CB A:CYS312 3.4 40.6 1.0 CB A:CYS310 3.4 28.5 1.0 N A:CYS312 3.9 36.9 1.0 CA A:CYS310 4.1 27.4 1.0 CA A:CYS312 4.1 38.3 1.0 ND1 A:HIS244 4.2 30.1 1.0 O A:HOH601 4.3 40.3 1.0 CG A:HIS244 4.3 28.6 1.0 CB A:GLU314 4.3 47.8 1.0 N A:GLU314 4.4 52.7 1.0 CA A:CYS238 4.5 44.9 1.0 O A:HOH771 4.6 38.3 1.0 N A:SER311 4.6 36.5 1.0 C A:CYS310 4.6 32.9 1.0 C A:CYS312 4.7 35.5 1.0 N A:GLY313 4.7 41.4 1.0 O A:ALA240 4.7 26.6 1.0 N A:ALA315 4.7 50.6 1.0 CA A:PHE241 4.8 27.3 1.0 CG A:GLU314 4.8 56.7 1.0 CA A:GLU314 4.9 54.3 1.0 C A:ALA240 4.9 27.9 1.0 O A:HOH558 5.0 47.0 1.0

P.H.Malecki, A.Link, M.S.Weiss, U.Heinemann. Crystal Structure of KDM4D with Tetrazole Ligand To Be Published.