Zinc in PDB 7xyy: Trim E3 Ubiquitin Ligase Wt

The structure of Trim E3 Ubiquitin Ligase Wt, PDB code: 7xyy was solved by S.H.Park, H.K.Song, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.03 / 7.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	367.044, 98.064, 103.203, 90, 101.32, 90
R / Rfree (%)	26.9 / 31.4

The binding sites of Zinc atom in the Trim E3 Ubiquitin Ligase Wt (pdb code 7xyy). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Trim E3 Ubiquitin Ligase Wt, PDB code: 7xyy:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Trim E3 Ubiquitin Ligase Wt


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Trim E3 Ubiquitin Ligase Wt within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:317.4 occ:1.00 ND1 A:HIS89 2.0 311.0 1.0 SG A:CYS105 2.3 309.7 1.0 SG A:CYS108 2.3 351.5 1.0 SG A:CYS86 2.4 292.7 1.0 CG A:HIS89 2.9 316.2 1.0 CE1 A:HIS89 3.0 312.4 1.0 CB A:HIS89 3.1 316.5 1.0 CB A:CYS108 3.4 330.2 1.0 CB A:CYS105 3.5 303.5 1.0 CB A:CYS86 3.8 292.7 1.0 N A:CYS108 3.8 332.4 1.0 CD2 A:HIS89 4.0 320.8 1.0 NE2 A:HIS89 4.1 318.0 1.0 CA A:CYS108 4.1 336.9 1.0 N A:HIS89 4.2 309.3 1.0 CA A:HIS89 4.3 316.5 1.0 CA A:CYS105 4.5 305.1 1.0 N A:CYS105 4.5 299.9 1.0 CD2 A:LEU93 4.7 312.8 1.0 C A:VAL107 4.8 332.4 1.0 CB A:VAL107 4.8 334.5 1.0 N A:VAL107 4.9 331.9 1.0 C A:CYS105 5.0 314.7 1.0

Zinc binding site 2 out of 4 in the Trim E3 Ubiquitin Ligase Wt


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Trim E3 Ubiquitin Ligase Wt within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn502 b:318.2 occ:1.00 ND1 A:HIS117 1.9 346.4 1.0 ND1 A:HIS114 1.9 304.5 1.0 OD2 A:ASP100 2.0 409.3 1.0 SG A:CYS97 2.4 308.8 1.0 CG A:ASP100 2.8 408.7 1.0 CG A:HIS114 2.8 307.8 1.0 CE1 A:HIS114 2.8 303.8 1.0 CE1 A:HIS117 2.9 368.1 1.0 CG A:HIS117 2.9 342.0 1.0 CB A:ASP100 3.2 375.5 1.0 CB A:HIS114 3.2 317.9 1.0 CB A:HIS117 3.3 332.4 1.0 CA A:HIS114 3.8 323.4 1.0 NE2 A:HIS114 3.8 294.5 1.0 OD1 A:ASP100 3.8 428.4 1.0 CD2 A:HIS114 3.9 301.7 1.0 CB A:CYS97 4.0 301.3 1.0 NE2 A:HIS117 4.0 369.9 1.0 CD2 A:HIS117 4.0 346.7 1.0 O A:SER113 4.1 318.6 1.0 N A:ASP100 4.3 362.5 1.0 CA A:ASP100 4.3 380.3 1.0 N A:HIS114 4.6 319.8 1.0 C A:SER113 4.7 314.6 1.0 CA A:HIS117 4.8 344.5 1.0 CB A:GLN99 4.8 351.3 1.0 C A:GLN99 4.9 370.6 1.0 C A:HIS114 4.9 334.4 1.0

Zinc binding site 3 out of 4 in the Trim E3 Ubiquitin Ligase Wt


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Trim E3 Ubiquitin Ligase Wt within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn501 b:300.5 occ:1.00 ND1 B:HIS89 2.0 327.5 1.0 SG B:CYS108 2.1 351.1 1.0 SG B:CYS86 2.2 322.7 1.0 SG B:CYS105 2.4 322.5 1.0 CG B:HIS89 2.8 328.8 1.0 CB B:CYS108 3.0 342.7 1.0 CE1 B:HIS89 3.0 332.7 1.0 CB B:HIS89 3.1 328.0 1.0 N B:CYS108 3.2 326.1 1.0 CB B:CYS86 3.4 322.0 1.0 CA B:CYS108 3.5 340.9 1.0 CB B:CYS105 3.8 319.9 1.0 CD2 B:HIS89 3.9 331.2 1.0 N B:HIS89 4.0 329.0 1.0 NE2 B:HIS89 4.0 337.0 1.0 CA B:HIS89 4.1 328.8 1.0 C B:VAL107 4.2 328.4 1.0 CB B:VAL107 4.5 329.9 1.0 N B:CYS105 4.6 359.2 1.0 CA B:CYS105 4.7 333.9 1.0 CA B:VAL107 4.7 328.9 1.0 N B:VAL107 4.8 326.9 1.0 CA B:CYS86 4.8 338.4 1.0 CD2 B:LEU93 4.8 357.6 1.0 C B:HIS89 4.9 328.2 1.0 C B:GLU88 4.9 355.1 1.0 OE1 B:GLU88 4.9 418.3 1.0 C B:CYS105 4.9 321.6 1.0 C B:CYS108 5.0 345.9 1.0

Zinc binding site 4 out of 4 in the Trim E3 Ubiquitin Ligase Wt


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Trim E3 Ubiquitin Ligase Wt within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn502 b:365.2 occ:1.00 ND1 B:HIS114 1.9 328.8 1.0 OD2 B:ASP100 2.0 428.9 1.0 ND1 B:HIS117 2.0 350.9 1.0 SG B:CYS97 2.3 326.0 1.0 CG B:HIS114 2.5 328.2 1.0 CG B:ASP100 2.8 461.3 1.0 CB B:HIS114 2.8 330.6 1.0 CE1 B:HIS114 2.9 326.4 1.0 CG B:HIS117 2.9 336.9 1.0 CE1 B:HIS117 3.0 353.3 1.0 CB B:HIS117 3.2 334.7 1.0 CB B:ASP100 3.3 432.6 1.0 CA B:HIS114 3.5 334.3 1.0 CD2 B:HIS114 3.5 325.5 1.0 NE2 B:HIS114 3.7 324.4 1.0 OD1 B:ASP100 3.7 514.7 1.0 CB B:CYS97 3.8 321.9 1.0 O B:SER113 3.9 337.3 1.0 NE2 B:HIS117 4.0 341.6 1.0 CD2 B:HIS117 4.0 340.8 1.0 N B:ASP100 4.2 439.8 1.0 N B:HIS114 4.3 334.5 1.0 CA B:ASP100 4.4 432.7 1.0 C B:SER113 4.4 335.2 1.0 C B:HIS114 4.7 344.1 1.0 CA B:HIS117 4.8 337.4 1.0 CB B:GLN99 4.8 372.2 1.0 C B:GLN99 4.9 444.1 1.0

S.H.Park, H.K.Song. Trim E3 Ubiquitin Ligase Wt To Be Published.