Zinc in PDB 6fno: Caldiarchaeum Subterraneum Ubiquitin:RPN11-Homolog Complex, Zinc Soak

The structure of Caldiarchaeum Subterraneum Ubiquitin:RPN11-Homolog Complex, Zinc Soak, PDB code: 6fno 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)	37.80 / 1.95
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	84.164, 94.832, 171.013, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 20.1

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

Zinc binding site 1 out of 2 in the Caldiarchaeum Subterraneum Ubiquitin:RPN11-Homolog Complex, Zinc Soak


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Caldiarchaeum Subterraneum Ubiquitin:RPN11-Homolog Complex, Zinc Soak within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:33.5 occ:1.00 O C:HOH202 2.0 41.2 1.0 OD2 A:ASP96 2.0 30.4 1.0 NE2 A:HIS83 2.0 29.3 1.0 NE2 A:HIS85 2.1 31.9 1.0 CG A:ASP96 2.7 30.0 1.0 OD1 A:ASP96 2.7 29.6 1.0 CE1 A:HIS83 2.9 30.1 1.0 CD2 A:HIS85 3.0 31.7 1.0 CD2 A:HIS83 3.1 29.2 1.0 CE1 A:HIS85 3.1 33.7 1.0 O C:GLY78 3.8 56.8 1.0 ND1 A:HIS83 4.1 29.2 1.0 CB A:ASP96 4.1 29.0 1.0 ND1 A:HIS85 4.2 34.5 1.0 CG A:HIS83 4.2 27.6 1.0 CG A:HIS85 4.2 33.7 1.0 OG A:SER93 4.2 34.5 1.0 N C:GLY78 4.3 43.6 1.0 OE1 A:GLU24 4.4 33.8 1.0 O A:PHE91 4.4 33.9 1.0 CA C:GLY77 4.6 35.9 1.0 N A:SER93 4.6 33.6 1.0 CB A:SER93 4.7 35.4 1.0 OE2 A:GLU24 4.8 40.8 1.0 C C:GLY77 4.8 39.1 1.0 C C:GLY78 4.8 53.6 1.0 CD A:GLU24 4.9 34.2 1.0

Zinc binding site 2 out of 2 in the Caldiarchaeum Subterraneum Ubiquitin:RPN11-Homolog Complex, Zinc Soak


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Caldiarchaeum Subterraneum Ubiquitin:RPN11-Homolog Complex, Zinc Soak within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn201 b:34.6 occ:1.00 OD2 B:ASP96 2.0 36.4 1.0 NE2 B:HIS83 2.0 30.5 1.0 O D:HOH112 2.0 44.3 1.0 NE2 B:HIS85 2.1 36.4 1.0 CG B:ASP96 2.7 33.4 1.0 OD1 B:ASP96 2.8 32.7 1.0 CE1 B:HIS83 2.9 31.0 1.0 CD2 B:HIS83 3.0 30.7 1.0 CD2 B:HIS85 3.0 35.7 1.0 CE1 B:HIS85 3.1 37.0 1.0 O D:GLY78 3.9 56.0 1.0 ND1 B:HIS83 4.0 32.4 1.0 CB B:ASP96 4.1 31.9 1.0 CG B:HIS83 4.1 30.1 1.0 N D:GLY78 4.1 43.5 1.0 OG B:SER93 4.2 35.8 1.0 ND1 B:HIS85 4.2 35.9 1.0 CG B:HIS85 4.2 35.9 1.0 OE1 B:GLU24 4.3 35.5 1.0 O B:PHE91 4.4 33.6 1.0 CA D:GLY77 4.5 35.6 1.0 N B:SER93 4.6 35.0 1.0 C D:GLY77 4.7 38.6 1.0 CB B:SER93 4.7 34.8 1.0 OE2 B:GLU24 4.7 38.9 1.0 CD B:GLU24 4.8 34.6 1.0 C D:GLY78 4.9 53.3 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