Zinc in PDB 8vqr: Crystal Structure of Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2

The structure of Crystal Structure of Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2, PDB code: 8vqr was solved by F.-C.Hsueh, K.Shi, H.Aihara, F.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.41 / 2.57
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	80.961, 118.107, 112.233, 90, 92.89, 90
R / Rfree (%)	21.4 / 26.4

The structure of Crystal Structure of Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2 also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Zinc atom in the Crystal Structure of Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2 (pdb code 8vqr). 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 Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2, PDB code: 8vqr:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2


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 Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn701 b:85.0 occ:1.00 O A:HOH802 2.1 95.3 1.0 NE2 A:HIS378 2.3 80.4 1.0 NE2 A:HIS374 2.3 77.8 1.0 CD2 A:HIS374 2.4 77.6 1.0 CD2 A:HIS378 2.7 77.5 1.0 OE2 A:GLU402 3.0 61.2 1.0 OE2 A:GLU375 3.2 84.0 1.0 O3 D:BMA4 3.2 111.4 1.0 OE1 A:GLU375 3.4 75.3 1.0 CD A:GLU375 3.5 75.3 1.0 CE1 A:HIS378 3.5 78.7 1.0 CE1 A:HIS374 3.6 86.6 1.0 CG A:HIS374 3.8 68.2 1.0 CD A:GLU402 3.8 59.6 1.0 OE1 A:GLU402 3.9 85.4 1.0 CG A:HIS378 3.9 65.3 1.0 C3 D:BMA4 4.0 117.0 1.0 ND1 A:HIS374 4.3 77.4 1.0 ND1 A:HIS378 4.3 77.7 1.0 C4 D:BMA4 4.6 112.7 1.0 O A:HIS374 4.7 87.0 1.0 CG A:GLU375 4.8 72.0 1.0 CA A:GLU375 4.8 85.8 1.0 C A:HIS374 4.9 83.0 1.0 N A:GLU375 4.9 92.2 1.0 CB A:HIS374 5.0 76.2 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2


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 Chimeric Sars-Cov-2 Rbd Complexed with Chimeric Raccoon Dog ACE2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn701 b:85.7 occ:1.00 OE2 B:GLU402 2.1 67.5 1.0 NE2 B:HIS374 2.3 43.4 1.0 NE2 B:HIS378 2.3 60.8 1.0 CD B:GLU402 2.9 52.2 1.0 CD2 B:HIS374 2.9 46.0 1.0 OE1 B:GLU402 3.0 54.0 1.0 CD2 B:HIS378 3.2 65.6 1.0 CE1 B:HIS378 3.3 54.9 1.0 CE1 B:HIS374 3.5 52.2 1.0 O B:HOH802 3.8 49.5 1.0 OE2 B:GLU375 3.9 51.8 1.0 CG B:HIS374 4.2 39.5 1.0 CG B:GLU402 4.2 46.2 1.0 OE1 B:GLU375 4.3 44.5 1.0 O3 J:MAN4 4.3 89.2 1.0 CG B:HIS378 4.4 50.9 1.0 ND1 B:HIS378 4.4 54.5 1.0 CD B:GLU375 4.4 42.1 1.0 ND1 B:HIS374 4.4 48.6 1.0 O2 J:MAN4 4.6 89.1 1.0 CA B:GLU402 4.8 49.2 1.0 C4 J:MAN4 4.9 85.0 1.0 O4 J:MAN4 4.9 85.1 1.0 CB B:GLU402 5.0 43.5 1.0

W.Zhang, K.Shi, Q.Geng, H.Aihara, F.Li. Structural Evolution of Sars-Cov-2 Omicron in Human Receptor Recognition To Be Published.