Zinc in PDB 6fju: RPN11 Homolog From Caldiarchaeum Subterraneum

The structure of RPN11 Homolog From Caldiarchaeum Subterraneum, PDB code: 6fju was solved by A.C.D.Fuchs, R.Albrecht, J.Martin, M.D.Hartmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.80 / 1.65
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	64.452, 65.614, 99.708, 90.00, 90.00, 90.00
R / Rfree (%)	16.6 / 19

The binding sites of Zinc atom in the RPN11 Homolog From Caldiarchaeum Subterraneum (pdb code 6fju). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the RPN11 Homolog From Caldiarchaeum Subterraneum, PDB code: 6fju:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the RPN11 Homolog From Caldiarchaeum Subterraneum


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of RPN11 Homolog From Caldiarchaeum Subterraneum within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:46.3 occ:1.00 O A:HOH507 2.0 36.3 1.0 NE2 A:HIS85 2.1 32.8 1.0 OD2 A:ASP96 2.1 29.4 1.0 NE2 A:HIS83 2.2 35.5 1.0 CG A:ASP96 3.0 29.6 1.0 CE1 A:HIS85 3.0 33.8 1.0 CD2 A:HIS85 3.1 35.3 1.0 CE1 A:HIS83 3.1 38.1 1.0 CD2 A:HIS83 3.2 33.5 1.0 OD1 A:ASP96 3.3 33.4 1.0 ND1 A:HIS85 4.1 32.5 1.0 CG A:HIS85 4.2 27.5 1.0 ND1 A:HIS83 4.2 35.9 1.0 O A:PHE91 4.3 24.1 1.0 OG A:SER93 4.3 30.7 1.0 CG A:HIS83 4.3 27.7 1.0 CB A:ASP96 4.4 26.2 1.0 N A:SER93 4.4 26.9 1.0 CB A:SER93 4.5 30.5 1.0 OE1 A:GLU24 4.6 45.3 1.0

Zinc binding site 2 out of 2 in the RPN11 Homolog From Caldiarchaeum Subterraneum


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of RPN11 Homolog From Caldiarchaeum Subterraneum within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn301 b:72.5 occ:1.00 NE2 B:HIS83 2.1 49.6 1.0 OD2 B:ASP96 2.2 53.3 1.0 NE2 B:HIS85 2.2 46.3 1.0 CG B:ASP96 2.8 46.9 1.0 OD1 B:ASP96 2.9 44.0 1.0 CD2 B:HIS83 3.0 46.7 1.0 CD2 B:HIS85 3.1 48.1 1.0 CE1 B:HIS83 3.2 50.2 1.0 CE1 B:HIS85 3.3 53.7 1.0 OG B:SER93 4.1 49.1 1.0 CG B:HIS83 4.2 40.5 1.0 ND1 B:HIS83 4.2 46.0 1.0 CB B:ASP96 4.3 38.8 1.0 CG B:HIS85 4.3 42.9 1.0 OE1 B:GLU24 4.3 64.1 1.0 ND1 B:HIS85 4.3 48.4 1.0 CB B:SER93 4.6 45.0 1.0 N B:SER93 4.7 36.6 1.0 O B:PHE91 5.0 34.8 1.0

A.C.D.Fuchs, L.Maldoner, M.Wojtynek, M.D.Hartmann, J.Martin. RPN11-Mediated Ubiquitin Processing in An Ancestral Archaeal Ubiquitination System. Nat Commun V. 9 2696 2018.
ISSN: ESSN 2041-1723
PubMed: 30002364
DOI: 10.1038/S41467-018-05198-1