Zinc in PDB 3sba: Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization

All present enzymatic activity of Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization:
3.2.1.17;

The structure of Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization, PDB code: 3sba was solved by A.B.Soriaga, A.Laganowsky, M.Zhao, M.R.Sawaya, D.Cascio, T.O.Yeates, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.77 / 2.75
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	55.470, 137.780, 146.940, 90.00, 90.00, 90.00
R / Rfree (%)	22.2 / 27.8

The structure of Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Zinc atom in the Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization (pdb code 3sba). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization, PDB code: 3sba:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn163 b:77.4 occ:1.00 NE2 B:HIS80 2.7 37.9 1.0 NE2 D:HIS80 2.9 32.8 1.0 CE1 B:HIS80 3.0 33.8 1.0 CE1 B:HIS76 3.0 25.1 1.0 NE2 B:HIS76 3.3 20.1 1.0 CE1 D:HIS76 3.4 30.1 1.0 CE1 D:HIS80 3.4 39.5 1.0 NE2 D:HIS76 3.6 36.7 1.0 CD2 B:HIS80 3.6 38.6 1.0 CD2 D:HIS80 3.7 29.1 1.0 ND1 B:HIS80 3.9 31.1 1.0 ND1 B:HIS76 4.2 25.3 1.0 CG B:HIS80 4.3 31.1 1.0 ND1 D:HIS80 4.3 38.1 1.0 ND1 D:HIS76 4.5 28.1 1.0 CG D:HIS80 4.5 27.5 1.0 CD2 B:HIS76 4.6 17.2 1.0 CD2 D:HIS76 4.8 33.7 1.0

Zinc binding site 2 out of 3 in the Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn163 b:80.5 occ:1.00 NE2 E:HIS80 2.5 44.1 1.0 CE1 E:HIS80 2.8 41.2 1.0 CE1 C:HIS76 3.0 18.9 1.0 NE2 C:HIS76 3.0 15.5 1.0 NE2 C:HIS80 3.1 62.2 1.0 CE1 E:HIS76 3.4 22.2 1.0 CE1 C:HIS80 3.6 61.3 1.0 CD2 E:HIS80 3.6 35.8 1.0 CD2 C:HIS80 3.8 56.5 1.0 NE2 E:HIS76 3.9 24.4 1.0 ND1 E:HIS80 4.0 29.6 1.0 ND1 C:HIS76 4.2 22.8 1.0 CD2 C:HIS76 4.3 4.1 1.0 ND1 C:HIS80 4.4 53.3 1.0 ND1 E:HIS76 4.4 25.8 1.0 CG E:HIS80 4.4 21.0 1.0 CG C:HIS80 4.5 42.6 1.0 CG C:HIS76 4.9 27.7 1.0

Zinc binding site 3 out of 3 in the Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Zn-Mediated Hexamer of T4 Lysozyme R76H/R80H By Synthetic Symmetrization within 5.0Å range: probe atom residue distance (Å) B Occ F:Zn163 b:92.0 occ:1.00 NE2 A:HIS80 2.6 45.9 1.0 NE2 F:HIS76 2.9 31.1 1.0 NE2 F:HIS80 3.0 31.2 1.0 CE1 A:HIS80 3.1 48.0 1.0 CE1 F:HIS76 3.1 25.6 1.0 CE1 F:HIS80 3.4 40.8 1.0 CE1 A:HIS76 3.4 33.5 1.0 CD2 A:HIS80 3.6 42.3 1.0 NE2 A:HIS76 3.8 27.6 1.0 CD2 F:HIS80 3.8 28.9 1.0 CD2 F:HIS76 4.1 24.8 1.0 ND1 A:HIS80 4.2 44.9 1.0 ND1 F:HIS80 4.2 34.1 1.0 ND1 F:HIS76 4.4 13.2 1.0 CG F:HIS80 4.5 21.4 1.0 CG A:HIS80 4.5 37.7 1.0 ND1 A:HIS76 4.5 28.4 1.0 CG F:HIS76 4.9 23.7 1.0 CD2 A:HIS76 5.0 19.4 1.0

A.Laganowsky, M.Zhao, A.B.Soriaga, M.R.Sawaya, D.Cascio, T.O.Yeates. An Approach to Crystallizing Proteins By Metal-Mediated Synthetic Symmetrization. Protein Sci. V. 20 1876 2011.
ISSN: ISSN 0961-8368
PubMed: 21898649
DOI: 10.1002/PRO.727