Zinc in PDB 5ulk: Crystal Structure of RNF165 in Complex with A UBCH5B~Ub Conjugate

All present enzymatic activity of Crystal Structure of RNF165 in Complex with A UBCH5B~Ub Conjugate:
2.3.2.23; 2.3.2.24; 2.3.2.27;

The structure of Crystal Structure of RNF165 in Complex with A UBCH5B~Ub Conjugate, PDB code: 5ulk was solved by A.J.Middleton, C.L.Day, J.D.Wright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	60.78 / 2.38
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	69.109, 73.714, 121.559, 90.00, 90.00, 90.00
R / Rfree (%)	20.7 / 26.7

The binding sites of Zinc atom in the Crystal Structure of RNF165 in Complex with A UBCH5B~Ub Conjugate (pdb code 5ulk). 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 RNF165 in Complex with A UBCH5B~Ub Conjugate, PDB code: 5ulk:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of RNF165 in Complex with A UBCH5B~Ub Conjugate


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 RNF165 in Complex with A UBCH5B~Ub Conjugate within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn401 b:73.9 occ:1.00 SG C:CYS331 2.1 71.9 1.0 CD2 C:HIS314 2.3 73.2 1.0 SG C:CYS334 2.4 72.3 1.0 SG C:CYS312 2.4 74.9 1.0 CB C:CYS331 3.0 70.1 1.0 CG C:HIS314 3.0 73.6 1.0 NE2 C:HIS314 3.2 77.5 1.0 CB C:CYS312 3.2 76.4 1.0 CB C:CYS334 3.4 75.7 1.0 CB C:HIS314 3.5 72.7 1.0 N C:CYS334 3.6 73.2 1.0 CA C:CYS334 4.0 76.3 1.0 ND1 C:HIS314 4.0 76.6 1.0 CE1 C:HIS314 4.1 78.6 1.0 CA C:CYS331 4.4 70.8 1.0 CB C:ILE333 4.5 69.7 1.0 CA C:CYS312 4.5 76.7 1.0 C C:ILE333 4.7 73.8 1.0 C C:CYS334 4.7 77.7 1.0 N C:ARG335 4.7 77.4 1.0 N C:HIS314 4.7 74.7 1.0 C C:CYS312 4.7 76.9 1.0 CA C:HIS314 4.7 74.5 1.0 O C:CYS312 4.8 79.7 1.0 N C:ILE333 4.8 70.4 1.0 CA C:ILE333 4.9 71.1 1.0 C C:CYS331 4.9 72.6 1.0 CG2 C:ILE333 5.0 71.7 1.0 N C:VAL336 5.0 81.0 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of RNF165 in Complex with A UBCH5B~Ub Conjugate


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 RNF165 in Complex with A UBCH5B~Ub Conjugate within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn402 b:69.7 occ:1.00 SG C:CYS320 2.2 62.1 1.0 ND1 C:HIS317 2.3 72.6 1.0 SG C:CYS294 2.3 71.2 1.0 SG C:CYS297 2.4 72.2 1.0 CB C:CYS294 3.0 72.7 1.0 CG C:HIS317 3.1 70.2 1.0 CB C:CYS320 3.2 65.1 1.0 CB C:CYS297 3.2 70.8 1.0 CE1 C:HIS317 3.3 76.7 1.0 CB C:HIS317 3.3 68.9 1.0 N C:CYS297 3.5 68.6 1.0 N C:HIS317 3.9 67.3 1.0 CA C:CYS297 4.0 71.5 1.0 CA C:HIS317 4.2 66.9 1.0 CD2 C:HIS317 4.3 72.5 1.0 NE2 C:HIS317 4.3 75.8 1.0 CA C:CYS294 4.4 74.2 1.0 CB C:ILE296 4.5 66.5 1.0 C C:ILE296 4.6 69.6 1.0 CA C:CYS320 4.6 67.9 1.0 O C:CYS294 4.7 75.9 1.0 C C:CYS294 4.8 74.4 1.0 C C:CYS297 4.8 73.9 1.0 O C:SER299 4.8 79.9 1.0 O C:HIS317 4.9 67.9 1.0 CA C:ILE296 4.9 68.2 1.0 N C:ILE296 4.9 68.3 1.0 N C:LEU298 4.9 75.4 1.0

A.J.Middleton, J.D.Wright, C.L.Day. Discovery of New Non-Covalent Ubiquitin Binding Sites on UBCH5 To Be Published.