Zinc in PDB 3u5n: Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide

The structure of Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide, PDB code: 3u5n was solved by Z.Wang, D.J.Patel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.79 / 1.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	97.586, 113.737, 39.861, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 25.6

The binding sites of Zinc atom in the Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide (pdb code 3u5n). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide, PDB code: 3u5n:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide


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 Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:35.7 occ:1.00 ND1 A:HIS910 2.3 26.4 1.0 SG A:CYS913 2.3 27.7 1.0 SG A:CYS890 2.3 24.1 1.0 SG A:CYS893 2.3 29.4 1.0 CB A:CYS890 3.0 26.5 1.0 CE1 A:HIS910 3.1 34.1 1.0 CB A:CYS913 3.2 25.0 1.0 CG A:HIS910 3.3 23.7 1.0 CB A:CYS893 3.3 29.9 1.0 CB A:HIS910 3.6 25.9 1.0 N A:CYS893 3.7 33.0 1.0 CA A:CYS893 4.1 30.2 1.0 N A:HIS910 4.2 21.7 1.0 NE2 A:HIS910 4.3 29.8 1.0 CD2 A:HIS910 4.4 24.6 1.0 CA A:CYS890 4.5 28.1 1.0 CB A:VAL892 4.5 23.5 1.0 CA A:HIS910 4.6 21.6 1.0 CA A:CYS913 4.6 26.4 1.0 C A:VAL892 4.8 28.5 1.0 C A:CYS893 4.9 34.0 1.0 O A:HOH180 4.9 37.7 1.0 CG1 A:VAL892 4.9 28.8 1.0 N A:GLN894 4.9 34.7 1.0 C A:CYS890 5.0 32.1 1.0 O A:HOH48 5.0 36.6 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide


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 Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2 b:36.8 occ:1.00 SG A:CYS902 2.4 26.7 1.0 SG A:CYS928 2.4 27.2 1.0 SG A:CYS905 2.4 31.3 1.0 SG A:CYS931 2.5 36.4 1.0 CB A:CYS902 3.2 27.4 1.0 CB A:CYS905 3.3 34.3 1.0 CB A:CYS931 3.4 22.4 1.0 CB A:CYS928 3.5 22.1 1.0 N A:CYS905 3.9 41.0 1.0 N A:CYS928 3.9 21.3 1.0 CA A:CYS905 4.1 32.8 1.0 N A:CYS931 4.1 22.7 1.0 CA A:CYS928 4.2 21.1 1.0 O A:HOH23 4.3 36.0 1.0 CA A:CYS931 4.4 27.7 1.0 C A:LYS904 4.6 43.0 1.0 C A:CYS905 4.6 39.1 1.0 CA A:CYS902 4.7 23.8 1.0 CB A:PHE930 4.7 22.6 1.0 O A:CYS905 4.7 36.9 1.0 C A:CYS928 4.7 22.6 1.0 O A:CYS928 4.8 27.2 1.0 CB A:LYS904 4.9 50.2 1.0 N A:LYS904 5.0 36.5 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1 b:37.6 occ:1.00 ND1 B:HIS910 2.2 30.4 1.0 SG B:CYS913 2.2 30.3 1.0 SG B:CYS890 2.4 31.1 1.0 SG B:CYS893 2.5 28.8 1.0 CB B:CYS890 3.1 31.8 1.0 CB B:CYS913 3.2 26.3 1.0 CE1 B:HIS910 3.2 31.0 1.0 CG B:HIS910 3.2 26.9 1.0 CB B:CYS893 3.3 30.8 1.0 CB B:HIS910 3.5 29.4 1.0 N B:CYS893 3.8 30.7 1.0 N B:HIS910 4.1 29.0 1.0 CA B:CYS893 4.2 27.4 1.0 NE2 B:HIS910 4.3 34.7 1.0 CD2 B:HIS910 4.3 28.8 1.0 CA B:HIS910 4.4 30.9 1.0 CA B:CYS890 4.5 33.9 1.0 O B:HOH152 4.6 41.5 1.0 CA B:CYS913 4.6 26.0 1.0 CB B:VAL892 4.7 26.6 1.0 C B:CYS893 4.9 31.9 1.0 C B:VAL892 4.9 32.5 1.0 N B:CYS913 5.0 28.4 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Complex of TRIM33 Phd-Bromo and H3(1-20) K9ME3K14AC Histone Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn2 b:40.4 occ:1.00 SG B:CYS905 2.4 33.0 1.0 SG B:CYS931 2.4 38.3 1.0 SG B:CYS928 2.5 33.8 1.0 SG B:CYS902 2.5 31.3 1.0 CB B:CYS905 3.3 43.3 1.0 CB B:CYS931 3.3 31.5 1.0 CB B:CYS902 3.3 34.2 1.0 N B:CYS905 3.6 45.5 1.0 CB B:CYS928 3.8 34.4 1.0 CA B:CYS905 4.0 40.3 1.0 N B:CYS931 4.1 33.9 1.0 N B:CYS928 4.2 40.1 1.0 CA B:CYS931 4.3 33.2 1.0 CA B:CYS928 4.5 34.0 1.0 CB B:LYS904 4.6 54.5 1.0 C B:CYS905 4.6 41.5 1.0 O B:CYS905 4.6 37.9 1.0 CB B:PHE930 4.7 25.9 1.0 C B:LYS904 4.8 51.0 1.0 CA B:CYS902 4.8 37.3 1.0 C B:PHE930 5.0 35.3 1.0 C B:CYS928 5.0 38.3 1.0

Q.Xi, Z.Wang, A.I.Zaromytidou, X.H.Zhang, L.F.Chow-Tsang, J.X.Liu, H.Kim, A.Barlas, K.Manova-Todorova, V.Kaartinen, L.Studer, W.Mark, D.J.Patel, J.Massague. A Poised Chromatin Platform For Tgf-Beta Access to Master Regulators Cell(Cambridge,Mass.) V. 147 1511 2011.
ISSN: ISSN 0092-8674
PubMed: 22196728
DOI: 10.1016/J.CELL.2011.11.032