Zinc in PDB 8bd8: Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 8

All present enzymatic activity of Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 8:
2.3.2.27;

The structure of Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 8, PDB code: 8bd8 was solved by G.Tassone, C.Pozzi, T.Palomba, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.30 / 3.10
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	80.015, 80.015, 134.469, 90, 90, 120
R / Rfree (%)	21 / 33.8

The structure of Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 8 also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 8 (pdb code 8bd8). 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 TRIM33 Alpha Phd-Bromo Domain in Complex with 8, PDB code: 8bd8:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 8


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 TRIM33 Alpha Phd-Bromo Domain in Complex with 8 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1102 b:119.6 occ:1.00 SG A:CYS890 2.3 53.6 1.0 SG A:CYS893 2.3 59.3 1.0 ND1 A:HIS910 2.4 73.9 1.0 SG A:CYS913 2.4 57.5 1.0 CB A:CYS913 3.0 54.3 1.0 CB A:CYS893 3.1 53.0 1.0 CB A:CYS890 3.1 62.6 1.0 CG A:HIS910 3.3 69.7 1.0 CB A:HIS910 3.4 59.9 1.0 CE1 A:HIS910 3.4 72.8 1.0 N A:CYS893 3.6 67.8 1.0 CA A:CYS893 3.9 58.8 1.0 N A:HIS910 4.1 51.4 1.0 CA A:HIS910 4.4 53.3 1.0 CA A:CYS913 4.4 52.4 1.0 CD2 A:HIS910 4.5 80.0 1.0 NE2 A:HIS910 4.5 81.0 1.0 CA A:CYS890 4.6 61.2 1.0 C A:VAL892 4.8 64.5 1.0 C A:CYS893 4.8 61.0 1.0 CB A:VAL892 4.8 54.5 1.0 O A:CYS890 4.9 54.4 1.0 N A:CYS913 4.9 54.4 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 8


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 TRIM33 Alpha Phd-Bromo Domain in Complex with 8 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1103 b:195.5 occ:1.00 SG A:CYS931 2.3 69.2 1.0 SG A:CYS902 2.3 69.0 1.0 SG A:CYS905 2.3 67.3 1.0 SG A:CYS928 2.4 70.5 1.0 CB A:CYS902 3.0 67.8 1.0 CB A:CYS931 3.1 63.7 1.0 CB A:CYS905 3.3 62.3 1.0 CB A:LYS907 3.8 71.5 1.0 CB A:CYS928 4.0 53.1 1.0 N A:CYS931 4.1 64.3 1.0 CA A:CYS931 4.2 59.9 1.0 CA A:CYS905 4.4 68.8 1.0 N A:CYS905 4.4 67.0 1.0 CA A:CYS902 4.4 71.7 1.0 C A:LYS904 4.6 61.6 1.0 C A:CYS905 4.7 73.8 1.0 N A:CYS928 4.7 57.7 1.0 O A:CYS905 4.7 86.9 1.0 N A:LYS907 4.8 68.1 1.0 CA A:CYS928 4.9 52.2 1.0 CA A:LYS907 4.9 68.3 1.0 O A:LYS904 4.9 61.8 1.0

T.Palomba, G.Tassone, C.Vacca, M.Bartalucci, A.Valeri, C.Pozzi, S.Cross, L.Siragusa, J.Desantis. Exploiting Eliot For Scaffold-Repurposing Opportunities: TRIM33 A Possible Novel E3 Ligase to Expand the Toolbox For Protac Design. Int J Mol Sci V. 23 2022.
ISSN: ESSN 1422-0067
PubMed: 36430693
DOI: 10.3390/IJMS232214218