Zinc in PDB 6o5k: Murine TRIM28 BBOX1 Domain

All present enzymatic activity of Murine TRIM28 BBOX1 Domain:
2.3.2.27;

The structure of Murine TRIM28 BBOX1 Domain, PDB code: 6o5k was solved by Y.Sun, J.R.Keown, D.C.Goldstone, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.04 / 1.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	33.012, 51.459, 72.884, 90.00, 90.00, 90.00
R / Rfree (%)	18 / 20.8

The binding sites of Zinc atom in the Murine TRIM28 BBOX1 Domain (pdb code 6o5k). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Murine TRIM28 BBOX1 Domain, PDB code: 6o5k:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Murine TRIM28 BBOX1 Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Murine TRIM28 BBOX1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:20.8 occ:1.00 SG A:CYS157 2.3 26.7 1.0 SG A:CYS175 2.3 20.6 1.0 SG A:CYS178 2.3 19.8 1.0 SG A:CYS154 2.4 21.1 1.0 CB A:CYS154 3.3 22.4 1.0 CB A:CYS178 3.3 19.7 1.0 CB A:CYS157 3.3 27.3 1.0 CB A:CYS175 3.6 20.3 1.0 N A:CYS157 3.8 24.7 1.0 N A:CYS175 3.9 16.7 1.0 NH1 B:ARG184 3.9 30.8 1.0 CA A:CYS157 4.2 26.5 1.0 O A:HOH403 4.2 30.5 1.0 N A:CYS178 4.3 17.8 1.0 CA A:CYS175 4.3 18.1 1.0 CA A:CYS178 4.4 16.9 1.0 C A:SER156 4.4 27.3 1.0 CA A:CYS154 4.6 24.2 1.0 O A:HOH405 4.6 32.3 1.0 N A:SER156 4.8 26.7 1.0 C A:CYS154 4.9 23.8 1.0 C A:CYS175 4.9 18.5 1.0 CB A:SER156 4.9 30.3 1.0 CA A:SER156 4.9 29.2 1.0 O A:CYS175 4.9 18.1 1.0 C A:CYS157 5.0 29.7 1.0 O A:SER156 5.0 29.0 1.0

Zinc binding site 2 out of 4 in the Murine TRIM28 BBOX1 Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Murine TRIM28 BBOX1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:15.8 occ:1.00 ND1 A:HIS191 2.0 16.1 1.0 NE2 A:HIS182 2.1 15.9 1.0 SG A:CYS167 2.2 16.2 1.0 SG A:CYS170 2.3 18.5 1.0 CE1 A:HIS191 2.9 17.0 1.0 CD2 A:HIS182 3.1 16.6 1.0 CG A:HIS191 3.1 17.2 1.0 CE1 A:HIS182 3.2 14.8 1.0 CB A:CYS167 3.3 16.2 1.0 CB A:CYS170 3.3 17.6 1.0 CB A:HIS191 3.5 17.0 1.0 N A:CYS170 3.7 16.9 1.0 CA A:CYS170 4.1 17.2 1.0 NE2 A:HIS191 4.1 17.5 1.0 CD2 A:HIS191 4.2 18.1 1.0 CG A:HIS182 4.2 13.4 1.0 ND1 A:HIS182 4.2 16.5 1.0 CG2 A:THR188 4.5 17.1 1.0 CB A:GLU169 4.6 19.9 1.0 CA A:CYS167 4.6 16.2 1.0 C A:GLU169 4.7 17.6 1.0 CB A:THR188 4.8 16.6 1.0 O A:HOH422 4.9 34.7 1.0 N A:GLU169 4.9 20.6 1.0 OE1 A:GLU169 5.0 22.3 1.0 CA A:GLU169 5.0 19.2 1.0 CA A:HIS191 5.0 18.1 1.0

Zinc binding site 3 out of 4 in the Murine TRIM28 BBOX1 Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Murine TRIM28 BBOX1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:27.9 occ:1.00 SG B:CYS175 2.3 28.2 1.0 SG B:CYS157 2.3 32.9 1.0 SG B:CYS178 2.3 26.4 1.0 SG B:CYS154 2.3 31.7 1.0 CB B:CYS178 3.3 24.1 1.0 CB B:CYS157 3.3 36.8 1.0 CB B:CYS154 3.4 34.5 1.0 CB B:CYS175 3.5 28.1 1.0 N B:CYS157 3.8 47.1 1.0 N B:CYS175 3.9 27.3 1.0 NH1 A:ARG184 4.0 29.7 1.0 O B:HOH414 4.1 40.0 1.0 CA B:CYS157 4.1 41.9 1.0 N B:CYS178 4.2 23.1 1.0 CA B:CYS175 4.2 25.4 1.0 CA B:CYS178 4.3 22.6 1.0 C B:SER156 4.4 48.8 1.0 O B:HOH404 4.6 36.9 1.0 CB B:SER156 4.7 46.0 1.0 N B:SER156 4.7 42.6 1.0 CA B:CYS154 4.7 39.5 1.0 C B:CYS157 4.8 42.2 1.0 CA B:SER156 4.8 44.0 1.0 C B:CYS175 4.8 23.6 1.0 O B:CYS175 4.9 25.2 1.0 C B:CYS154 5.0 39.3 1.0

Zinc binding site 4 out of 4 in the Murine TRIM28 BBOX1 Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Murine TRIM28 BBOX1 Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn302 b:20.7 occ:1.00 ND1 B:HIS191 2.1 19.2 1.0 NE2 B:HIS182 2.1 18.0 1.0 SG B:CYS170 2.2 25.8 1.0 SG B:CYS167 2.3 21.0 1.0 CE1 B:HIS191 3.0 21.7 1.0 CD2 B:HIS182 3.0 18.5 1.0 CE1 B:HIS182 3.1 19.0 1.0 CG B:HIS191 3.1 21.7 1.0 CB B:CYS170 3.3 28.4 1.0 CB B:CYS167 3.4 21.5 1.0 CB B:HIS191 3.5 23.0 1.0 N B:CYS170 3.8 24.6 1.0 NE2 B:HIS191 4.1 21.7 1.0 CA B:CYS170 4.1 29.8 1.0 ND1 B:HIS182 4.2 16.7 1.0 CG B:HIS182 4.2 16.1 1.0 CD2 B:HIS191 4.2 21.3 1.0 CG2 B:THR188 4.5 18.9 1.0 CB B:GLU169 4.6 31.0 1.0 CB B:THR188 4.7 18.9 1.0 CA B:CYS167 4.7 22.0 1.0 C B:GLU169 4.8 27.7 1.0 O A:HOH425 4.8 35.7 1.0

Y.Sun, J.R.Keown, M.M.Black, C.Raclot, N.Demarais, D.Trono, P.Turelli, D.C.Goldstone. A Dissection of Oligomerization By the TRIM28 Tripartite Motif and the Interaction with Members of the Krab-Zfp Family. J.Mol.Biol. V. 431 2511 2019.
ISSN: ESSN 1089-8638
PubMed: 31078555
DOI: 10.1016/J.JMB.2019.05.002