Zinc in PDB 3s8p: Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine

All present enzymatic activity of Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine:
2.1.1.43;

The structure of Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine, PDB code: 3s8p was solved by R.Lam, H.Zeng, P.Loppnau, C.Bountra, J.Weigelt, C.H.Arrowsmith, A.M.Edwards, J.Min, H.Wu, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.94 / 1.85
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	46.424, 50.134, 74.839, 100.99, 108.05, 89.76
R / Rfree (%)	18.7 / 21.2

The binding sites of Zinc atom in the Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine (pdb code 3s8p). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine, PDB code: 3s8p:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine


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 Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn400 b:26.4 occ:1.00 SG A:CYS321 2.3 25.0 1.0 SG A:CYS319 2.3 23.3 1.0 SG A:CYS275 2.3 27.0 1.0 SG A:CYS324 2.4 25.8 1.0 CB A:CYS319 3.3 21.2 1.0 CB A:CYS324 3.3 26.4 1.0 CB A:CYS321 3.4 25.3 1.0 CB A:CYS275 3.5 27.0 1.0 N A:CYS275 3.9 25.1 1.0 N A:CYS324 4.0 25.4 1.0 N A:CYS321 4.0 25.0 1.0 NE2 A:HIS273 4.2 22.6 1.0 CA A:CYS324 4.2 26.9 1.0 CA A:CYS321 4.2 25.9 1.0 CA A:CYS275 4.3 25.3 1.0 CD2 A:HIS273 4.3 21.7 1.0 CA A:CYS319 4.5 23.7 1.0 O A:HOH346 4.6 35.4 1.0 C A:CYS319 4.6 25.1 1.0 O A:CYS321 4.8 27.8 1.0 C A:CYS321 4.8 28.5 1.0 O A:CYS319 4.8 25.7 1.0 C A:ASP274 4.8 24.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Set Domain of Human Histone-Lysine N- Methyltransferase SUV420H1 in Complex with S-Adenosyl-L-Methionine within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn400 b:28.7 occ:1.00 SG B:CYS275 2.2 29.0 1.0 SG B:CYS324 2.3 26.8 1.0 SG B:CYS321 2.3 26.4 1.0 SG B:CYS319 2.3 25.7 1.0 CB B:CYS324 3.2 27.8 1.0 CB B:CYS319 3.3 24.6 1.0 CB B:CYS275 3.4 29.0 1.0 CB B:CYS321 3.4 25.3 1.0 N B:CYS275 3.9 26.6 1.0 N B:CYS324 4.0 28.0 1.0 N B:CYS321 4.1 25.8 1.0 CE1 B:HIS273 4.1 21.7 1.0 CA B:CYS324 4.2 30.5 1.0 CA B:CYS275 4.2 28.0 1.0 CA B:CYS321 4.3 26.3 1.0 ND1 B:HIS273 4.3 22.5 1.0 O B:HOH347 4.4 33.6 1.0 CA B:CYS319 4.6 26.3 1.0 C B:CYS319 4.6 27.3 1.0 O B:CYS319 4.8 29.5 1.0 C B:CYS321 4.8 28.2 1.0 C B:ASP274 4.9 26.1 1.0 O B:CYS321 4.9 28.1 1.0

H.Wu, A.Siarheyeva, H.Zeng, R.Lam, A.Dong, X.H.Wu, Y.Li, M.Schapira, M.Vedadi, J.Min. Crystal Structures of the Human Histone H4K20 Methyltransferases SUV420H1 and SUV420H2. Febs Lett. V. 587 3859 2013.
ISSN: ISSN 0014-5793
PubMed: 24396869