Zinc in PDB 8bd9: Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 10

All present enzymatic activity of Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 10:
2.3.2.27;

The structure of Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 10, PDB code: 8bd9 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)	61.68 / 3.20
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	79.953, 79.953, 134.945, 90, 90, 120
R / Rfree (%)	23.2 / 34.9

The structure of Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 10 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 10 (pdb code 8bd9). 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 10, PDB code: 8bd9:
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 10


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 10 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1102 b:161.8 occ:1.00 SG A:CYS890 2.4 74.3 1.0 SG A:CYS893 2.5 79.0 1.0 ND1 A:HIS910 2.5 109.7 1.0 SG A:CYS913 2.7 79.5 1.0 CB A:CYS890 3.2 84.1 1.0 CB A:CYS913 3.2 71.6 1.0 CG A:HIS910 3.4 111.8 1.0 CB A:CYS893 3.4 73.5 1.0 CB A:HIS910 3.5 96.4 1.0 CE1 A:HIS910 3.6 115.1 1.0 N A:CYS893 3.8 102.2 1.0 N A:HIS910 4.1 79.7 1.0 CA A:CYS893 4.2 91.4 1.0 CA A:HIS910 4.4 82.1 1.0 CD2 A:HIS910 4.6 128.6 1.0 NE2 A:HIS910 4.7 127.1 1.0 CA A:CYS890 4.7 82.9 1.0 CB A:VAL892 4.7 75.1 1.0 CA A:CYS913 4.7 78.8 1.0 C A:VAL892 4.9 84.9 1.0 C A:CYS893 5.0 95.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of TRIM33 Alpha Phd-Bromo Domain in Complex with 10


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 10 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1103 b:188.5 occ:1.00 SG A:CYS931 2.4 77.8 1.0 SG A:CYS905 2.4 81.5 1.0 SG A:CYS928 2.4 79.0 1.0 SG A:CYS902 2.4 101.6 1.0 CB A:CYS902 3.2 85.3 1.0 CB A:CYS931 3.3 73.1 1.0 CB A:CYS905 3.5 86.6 1.0 CB A:CYS928 3.7 80.9 1.0 N A:CYS931 4.1 104.7 1.0 CA A:CYS931 4.3 90.2 1.0 N A:CYS928 4.3 88.7 1.0 N A:CYS905 4.3 80.7 1.0 CB A:LYS907 4.4 87.1 1.0 CA A:CYS905 4.4 86.4 1.0 CA A:CYS928 4.5 87.9 1.0 C A:LYS904 4.6 82.9 1.0 CB A:LYS904 4.6 72.3 1.0 CA A:CYS902 4.7 85.9 1.0 O A:CYS928 4.8 98.1 1.0 CB A:PHE930 4.8 81.3 1.0 C A:CYS928 4.9 93.4 1.0 O A:LYS904 5.0 90.9 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