Zinc in PDB 5h1v: Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6

The structure of Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6, PDB code: 5h1v was solved by J.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.46 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	50.028, 36.027, 113.207, 90.00, 96.88, 90.00
R / Rfree (%)	18 / 22

The binding sites of Zinc atom in the Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6 (pdb code 5h1v). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6, PDB code: 5h1v:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1101 b:26.6 occ:1.00 ND1 A:HIS849 2.1 28.0 1.0 SG A:CYS852 2.3 26.7 1.0 SG A:CYS829 2.4 27.5 1.0 SG A:CYS832 2.4 29.4 1.0 CE1 A:HIS849 3.1 28.6 1.0 CB A:CYS829 3.1 37.0 1.0 CG A:HIS849 3.2 24.9 1.0 CB A:CYS852 3.2 24.5 1.0 CB A:CYS832 3.4 25.7 1.0 CB A:HIS849 3.5 22.5 1.0 N A:CYS832 3.8 24.4 1.0 N A:HIS849 4.1 23.1 1.0 CA A:CYS832 4.2 23.6 1.0 NE2 A:HIS849 4.2 26.5 1.0 CD2 A:HIS849 4.3 28.2 1.0 CA A:HIS849 4.4 24.3 1.0 CA A:CYS829 4.5 33.8 1.0 CA A:CYS852 4.6 20.5 1.0 CB A:VAL831 4.7 27.1 1.0 C A:CYS832 4.8 33.7 1.0 C A:VAL831 4.9 32.6 1.0 N A:GLN833 5.0 29.1 1.0

Zinc binding site 2 out of 4 in the Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1102 b:24.4 occ:1.00 SG A:CYS870 2.3 24.9 1.0 SG A:CYS841 2.3 24.1 1.0 SG A:CYS867 2.4 21.8 1.0 SG A:CYS844 2.4 24.4 1.0 CB A:CYS841 3.2 22.1 1.0 CB A:CYS844 3.3 24.2 1.0 CB A:CYS870 3.3 23.1 1.0 CB A:CYS867 3.5 20.3 1.0 N A:CYS844 3.8 28.1 1.0 N A:CYS867 4.0 21.7 1.0 CA A:CYS844 4.1 30.3 1.0 N A:CYS870 4.1 18.8 1.0 CA A:CYS867 4.3 23.8 1.0 CA A:CYS870 4.4 19.6 1.0 C A:LYS843 4.5 33.9 1.0 CA A:CYS841 4.6 28.8 1.0 C A:CYS844 4.7 33.7 1.0 O A:CYS867 4.7 19.0 1.0 C A:CYS867 4.7 18.8 1.0 CB A:PHE869 4.7 20.9 1.0 O A:CYS844 4.8 29.2 1.0 CB A:LYS843 4.9 29.4 1.0 N A:LYS843 4.9 30.0 1.0

Zinc binding site 3 out of 4 in the Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1101 b:33.9 occ:1.00 ND1 B:HIS849 2.2 34.6 1.0 SG B:CYS852 2.3 32.5 1.0 SG B:CYS829 2.3 35.1 1.0 SG B:CYS832 2.4 34.2 1.0 CB B:CYS829 3.1 40.1 1.0 CE1 B:HIS849 3.1 41.3 1.0 CG B:HIS849 3.2 34.6 1.0 CB B:CYS852 3.2 33.9 1.0 CB B:CYS832 3.4 37.7 1.0 CB B:HIS849 3.5 31.1 1.0 N B:CYS832 3.7 31.4 1.0 N B:HIS849 4.1 29.9 1.0 CA B:CYS832 4.1 35.7 1.0 NE2 B:HIS849 4.2 41.1 1.0 CD2 B:HIS849 4.3 35.8 1.0 CA B:HIS849 4.4 32.2 1.0 CA B:CYS829 4.5 39.2 1.0 CB B:VAL831 4.6 30.4 1.0 CA B:CYS852 4.6 33.4 1.0 C B:VAL831 4.8 36.5 1.0 C B:CYS832 4.8 35.0 1.0 N B:GLN833 4.9 35.9 1.0

Zinc binding site 4 out of 4 in the Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Complex Structure of TRIM24 Phd-Bromodomain and Inhibitor 6 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1102 b:37.8 occ:1.00 SG B:CYS867 2.4 32.0 1.0 SG B:CYS841 2.4 38.5 1.0 SG B:CYS870 2.4 33.7 1.0 SG B:CYS844 2.4 38.1 1.0 CB B:CYS844 3.3 35.8 1.0 CB B:CYS870 3.3 37.5 1.0 CB B:CYS841 3.3 40.5 1.0 CB B:CYS867 3.6 30.9 1.0 N B:CYS844 3.8 37.3 1.0 N B:CYS867 4.0 34.3 1.0 CA B:CYS844 4.0 39.5 1.0 N B:CYS870 4.1 29.9 1.0 CA B:CYS867 4.3 28.7 1.0 CA B:CYS870 4.3 33.1 1.0 C B:LYS843 4.5 43.6 1.0 C B:CYS844 4.6 45.8 1.0 O B:CYS844 4.7 48.4 1.0 CB B:PHE869 4.7 30.4 1.0 CA B:CYS841 4.8 45.4 1.0 C B:CYS867 4.8 28.5 1.0 O B:CYS867 4.8 27.4 1.0 CG2 B:ILE866 4.8 42.2 1.0 N B:LYS843 4.9 43.6 1.0

J.Liu, F.Li, H.Bao, Y.Jiang, S.Zhang, R.Ma, J.Gao, J.Wu, K.Ruan. The Polar Warhead of A TRIM24 Bromodomain Inhibitor Rearranges A Water-Mediated Interaction Network Febs J. V. 284 1082 2017.
ISSN: ISSN 1742-4658
PubMed: 28207202
DOI: 10.1111/FEBS.14041