Zinc in PDB 7zf7: Sars-Cov-2 Omicron Ba.2 Rbd in Complex with ACE2

The structure of Sars-Cov-2 Omicron Ba.2 Rbd in Complex with ACE2, PDB code: 7zf7 was solved by D.Zhou, J.Huo, J.Ren, D.I.Stuart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	76.22 / 3.46
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	104.152, 104.152, 223.701, 90, 90, 90
R / Rfree (%)	25.8 / 26.9

The binding sites of Zinc atom in the Sars-Cov-2 Omicron Ba.2 Rbd in Complex with ACE2 (pdb code 7zf7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Sars-Cov-2 Omicron Ba.2 Rbd in Complex with ACE2, PDB code: 7zf7:

Zinc binding site 1 out of 1 in the Sars-Cov-2 Omicron Ba.2 Rbd in Complex with ACE2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Sars-Cov-2 Omicron Ba.2 Rbd in Complex with ACE2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn807 b:123.8 occ:1.00 NE2 A:HIS378 2.0 117.3 1.0 OE2 A:GLU402 2.2 118.1 1.0 NE2 A:HIS374 2.3 116.8 1.0 CD2 A:HIS378 2.9 114.2 1.0 CD2 A:HIS374 3.0 117.2 1.0 CD A:GLU402 3.0 115.7 1.0 CE1 A:HIS378 3.0 115.2 1.0 OE1 A:GLU402 3.2 116.9 1.0 CE1 A:HIS374 3.5 114.5 1.0 OE2 A:GLU375 3.6 121.6 1.0 CG A:HIS378 4.1 115.0 1.0 ND1 A:HIS378 4.1 113.0 1.0 CG A:HIS374 4.2 115.8 1.0 CD A:GLU375 4.3 120.6 1.0 OE1 A:GLU375 4.3 121.2 1.0 CG A:GLU402 4.4 113.8 1.0 ND1 A:HIS374 4.4 116.7 1.0

R.Nutalai, D.Zhou, A.Tuekprakhon, H.M.Ginn, P.Supasa, C.Liu, J.Huo, A.J.Mentzer, H.M.E.Duyvesteyn, A.Dijokaite-Guraliuc, D.Skelly, T.G.Ritter, A.Amini, S.Bibi, S.Adele, S.A.Johnson, B.Constantinides, H.Webster, N.Temperton, P.Klenerman, E.Barnes, S.J.Dunachie, D.Crook, A.J.Pollard, T.Lambe, P.Goulder, N.G.Paterson, M.A.Williams, D.R.Hall, J.Mongkolsapaya, E.E.Fry, W.Dejnirattisai, J.Ren, D.I.Stuart, G.R.Screaton. Potent Cross-Reactive Antibodies Following Omicron Breakthrough in Vaccinees. Cell V. 185 2116 2022.
ISSN: ISSN 1097-4172
PubMed: 35662412
DOI: 10.1016/J.CELL.2022.05.014