Zinc in PDB 7xby: The Crystal Structure of Sars-Cov-2 Omicron Ba.1 Variant Rbd in Complex with Equine ACE2

The structure of The Crystal Structure of Sars-Cov-2 Omicron Ba.1 Variant Rbd in Complex with Equine ACE2, PDB code: 7xby was solved by Z.P.Xu, K.F.Liu, P.Han, J.X.Qi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.90 / 2.85
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	113.975, 113.975, 152.738, 90, 90, 120
R / Rfree (%)	22.8 / 26.3

The structure of The Crystal Structure of Sars-Cov-2 Omicron Ba.1 Variant Rbd in Complex with Equine ACE2 also contains other interesting chemical elements:

Bromine

(Br)

6 atoms

The binding sites of Zinc atom in the The Crystal Structure of Sars-Cov-2 Omicron Ba.1 Variant Rbd in Complex with Equine ACE2 (pdb code 7xby). 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 The Crystal Structure of Sars-Cov-2 Omicron Ba.1 Variant Rbd in Complex with Equine ACE2, PDB code: 7xby:

Zinc binding site 1 out of 1 in the The Crystal Structure of Sars-Cov-2 Omicron Ba.1 Variant Rbd in Complex with Equine ACE2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of Sars-Cov-2 Omicron Ba.1 Variant Rbd in Complex with Equine ACE2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:72.5 occ:1.00 OE2 A:GLU402 2.0 49.2 1.0 NE2 A:HIS374 2.1 49.4 1.0 NE2 A:HIS378 2.1 45.0 1.0 CD2 A:HIS374 2.8 47.1 1.0 CD2 A:HIS378 2.9 45.7 1.0 CD A:GLU402 3.1 47.7 1.0 CE1 A:HIS378 3.2 41.4 1.0 OE2 A:GLU375 3.2 46.6 1.0 CE1 A:HIS374 3.3 44.8 1.0 OE1 A:GLU402 3.6 54.6 1.0 CG A:HIS374 4.0 41.2 1.0 CD A:GLU375 4.0 44.3 1.0 CG A:HIS378 4.1 37.6 1.0 OE1 A:GLU375 4.2 44.8 1.0 ND1 A:HIS378 4.2 36.1 1.0 ND1 A:HIS374 4.2 40.8 1.0 CG A:GLU402 4.3 39.0 1.0

Z.Xu, X.Kang, P.Han, P.Du, L.Li, A.Zheng, C.Deng, J.Qi, X.Zhao, Q.Wang, K.Liu, G.F.Gao. Binding and Structural Basis of Equine ACE2 to Rbds From Sars-Cov, Sars-Cov-2 and Related Coronaviruses. Nat Commun V. 13 3547 2022.
ISSN: ESSN 2041-1723
PubMed: 35729237
DOI: 10.1038/S41467-022-31276-6