Zinc in PDB 4ocm: Crystal Structure of the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib

The structure of Crystal Structure of the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib, PDB code: 4ocm was solved by G.R.Pathare, A.Bracher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.99
Space group	P 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	63.401, 44.970, 200.043, 90.00, 98.40, 90.00
R / Rfree (%)	21.6 / 26.2

The structure of Crystal Structure of the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib also contains other interesting chemical elements:

Potassium

(K)

1 atom

The binding sites of Zinc atom in the Crystal Structure of the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib (pdb code 4ocm). 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 the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib, PDB code: 4ocm:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib


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 the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:77.1 occ:1.00 OD2 B:ASP122 2.2 45.2 1.0 NE2 B:HIS109 2.3 41.0 1.0 CG B:ASP122 2.8 43.2 1.0 OD1 B:ASP122 2.9 44.9 1.0 ND1 B:HIS111 2.9 53.5 1.0 CD2 B:HIS109 3.1 37.1 1.0 CE1 B:HIS111 3.3 56.0 1.0 CE1 B:HIS109 3.4 41.2 1.0 OG B:SER119 4.0 46.2 1.0 OE1 B:GLU48 4.1 64.2 1.0 CG B:HIS111 4.2 54.2 1.0 CB B:ASP122 4.3 39.2 1.0 CG B:HIS109 4.3 35.4 1.0 ND1 B:HIS109 4.4 35.4 1.0 NE2 B:HIS111 4.5 58.0 1.0 N B:SER119 4.6 47.9 1.0 O B:TRP117 4.6 45.9 1.0 CD B:GLU48 4.6 60.2 1.0 CB B:SER119 4.7 49.7 1.0 CB B:HIS111 4.8 52.8 1.0 OE2 B:GLU48 4.9 67.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib


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 the RPN8-RPN11 Mpn Domain Heterodimer, Crystal Form Ib within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn401 b:59.1 occ:1.00 NE2 E:HIS111 2.1 50.0 1.0 NE2 E:HIS109 2.1 29.2 1.0 OD2 E:ASP122 2.2 39.7 1.0 O E:HOH507 2.5 51.6 1.0 CG E:ASP122 2.8 38.4 1.0 CE1 E:HIS111 2.9 50.1 1.0 CE1 E:HIS109 2.9 31.0 1.0 OD1 E:ASP122 3.0 38.7 1.0 CD2 E:HIS111 3.1 49.1 1.0 CD2 E:HIS109 3.2 28.7 1.0 ND1 E:HIS111 4.0 49.7 1.0 OG E:SER119 4.0 42.1 1.0 CG E:HIS111 4.1 48.4 1.0 ND1 E:HIS109 4.1 28.8 1.0 N E:SER119 4.2 35.4 1.0 CB E:ASP122 4.3 29.7 1.0 OE1 E:GLU48 4.3 52.2 1.0 CG E:HIS109 4.3 27.3 1.0 O E:TRP117 4.4 37.2 1.0 CB E:SER119 4.6 41.5 1.0 CA E:LEU118 4.9 31.6 1.0

G.R.Pathare, I.Nagy, P.Sledz, D.J.Anderson, H.J.Zhou, E.Pardon, J.Steyaert, F.Forster, A.Bracher, W.Baumeister. Crystal Structure of the Proteasomal Deubiquitylation Module RPN8-RPN11. Proc.Natl.Acad.Sci.Usa V. 111 2984 2014.
ISSN: ISSN 0027-8424
PubMed: 24516147
DOI: 10.1073/PNAS.1400546111