Zinc in PDB 5doc: Crystal Structure of the Human Cytomegalovirus UL53 Subunit of the Nec

The structure of Crystal Structure of the Human Cytomegalovirus UL53 Subunit of the Nec, PDB code: 5doc was solved by M.F.Lye, K.El Omari, D.J.Filman, J.M.Hogle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	61.06 / 1.94
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	33.800, 50.300, 63.000, 91.00, 103.00, 108.00
R / Rfree (%)	18.2 / 22

The binding sites of Zinc atom in the Crystal Structure of the Human Cytomegalovirus UL53 Subunit of the Nec (pdb code 5doc). 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 Human Cytomegalovirus UL53 Subunit of the Nec, PDB code: 5doc:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Human Cytomegalovirus UL53 Subunit of the Nec


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 Human Cytomegalovirus UL53 Subunit of the Nec within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:8.9 occ:1.00 NE2 A:HIS139 2.1 21.2 1.0 SG A:CYS53 2.3 28.1 1.0 SG A:CYS34 2.3 18.4 1.0 SG A:CYS50 2.3 25.6 1.0 CE1 A:HIS139 2.8 22.0 1.0 CB A:CYS34 3.0 18.0 1.0 CB A:CYS53 3.2 36.0 1.0 CB A:CYS50 3.3 28.0 1.0 CD2 A:HIS139 3.3 20.6 1.0 N A:CYS53 3.9 41.7 1.0 ND1 A:HIS139 4.0 22.1 1.0 CA A:CYS53 4.2 39.5 1.0 CA A:PRO141 4.2 19.3 1.0 CG A:HIS139 4.3 20.6 1.0 CD A:ARG47 4.4 35.0 1.0 CA A:CYS34 4.5 17.9 1.0 CB A:SER52 4.7 43.9 1.0 CA A:CYS50 4.7 30.6 1.0 N A:CYS142 4.7 19.8 1.0 CB A:PRO141 4.8 19.8 1.0 C A:SER52 4.8 42.6 1.0 CG1 A:VAL45 5.0 25.7 1.0 N A:PRO141 5.0 18.8 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Human Cytomegalovirus UL53 Subunit of the Nec


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 Human Cytomegalovirus UL53 Subunit of the Nec within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn300 b:13.0 occ:1.00 NE2 B:HIS139 2.1 28.5 1.0 SG B:CYS50 2.2 25.9 1.0 SG B:CYS34 2.3 19.6 1.0 SG B:CYS53 2.4 29.5 1.0 CE1 B:HIS139 2.9 29.8 1.0 CB B:CYS34 3.1 19.4 1.0 CB B:CYS50 3.2 30.1 1.0 CD2 B:HIS139 3.3 27.1 1.0 CB B:CYS53 3.4 33.6 1.0 N B:CYS53 3.8 35.2 1.0 ND1 B:HIS139 4.1 29.4 1.0 CA B:PRO141 4.1 20.4 1.0 CA B:CYS53 4.2 34.6 1.0 CG B:HIS139 4.3 26.7 1.0 CB B:PRO141 4.5 20.7 1.0 CA B:CYS34 4.5 19.7 1.0 CA B:CYS50 4.6 32.7 1.0 CB B:SER52 4.7 36.1 1.0 N B:CYS142 4.7 20.7 1.0 C B:SER52 4.8 36.3 1.0 N B:PRO141 4.8 20.2 1.0 O B:HOH446 4.9 25.1 1.0 C B:PRO141 5.0 20.1 1.0 CG1 B:VAL45 5.0 29.3 1.0 O B:ILE140 5.0 20.9 1.0

M.F.Lye, M.Sharma, K.El Omari, D.J.Filman, J.P.Schuermann, J.M.Hogle, D.M.Coen. Unexpected Features and Mechanism of Heterodimer Formation of A Herpesvirus Nuclear Egress Complex. Embo J. V. 34 2937 2015.
ISSN: ESSN 1460-2075
PubMed: 26511021
DOI: 10.15252/EMBJ.201592651