Zinc in PDB 4lxl: Crystal Structure of JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3

The structure of Crystal Structure of JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3, PDB code: 4lxl was solved by W.-C.Wang, C.-H.Chu, C.-C.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.67 / 1.87
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	54.364, 78.475, 83.893, 90.00, 90.00, 90.00
R / Rfree (%)	17.6 / 22.2

The structure of Crystal Structure of JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3 also contains other interesting chemical elements:

Nickel

(Ni)

1 atom

The binding sites of Zinc atom in the Crystal Structure of JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3 (pdb code 4lxl). 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 JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3, PDB code: 4lxl:

Zinc binding site 1 out of 1 in the Crystal Structure of JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3


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 JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:30.8 occ:1.00 NE2 A:HIS241 2.1 26.8 1.0 SG A:CYS235 2.2 28.7 1.0 SG A:CYS307 2.3 29.9 1.0 SG A:CYS309 2.4 35.3 1.0 CB A:CYS235 3.0 28.6 1.0 CD2 A:HIS241 3.1 27.9 1.0 CE1 A:HIS241 3.1 32.9 1.0 CB A:CYS307 3.4 29.0 1.0 CB A:CYS309 3.5 39.7 1.0 N A:CYS309 3.7 53.0 1.0 CA A:CYS307 3.9 36.6 1.0 N A:THR308 4.0 52.4 1.0 CA A:CYS309 4.0 44.5 1.0 C A:CYS307 4.2 45.0 1.0 ND1 A:HIS241 4.2 26.8 1.0 CG A:HIS241 4.3 26.9 1.0 N A:ARG310 4.3 37.3 1.0 CG A:ARG310 4.3 43.4 1.0 C A:CYS309 4.4 39.0 1.0 CA A:CYS235 4.4 40.1 1.0 C A:THR308 4.8 62.9 1.0 CA A:PHE238 4.9 21.8 1.0 O A:ALA237 4.9 21.3 1.0 CA A:THR308 5.0 60.0 1.0 CD A:ARG310 5.0 45.1 1.0

W.-C.Wang, C.-H.Chu, C.-C.Chen. Crystal Structure of JMJD2B Complexed with Pyridine-2,4-Dicarboxylic Acid and H3K9ME3 To Be Published.