Zinc in PDB 9dak: Merbecovirus PNNL2018B Spike Glycoprotein Rbd Bound to the P. Nathusii ACE2

The binding sites of Zinc atom in the Merbecovirus PNNL2018B Spike Glycoprotein Rbd Bound to the P. Nathusii ACE2 (pdb code 9dak). 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 Merbecovirus PNNL2018B Spike Glycoprotein Rbd Bound to the P. Nathusii ACE2, PDB code: 9dak:

Zinc binding site 1 out of 1 in the Merbecovirus PNNL2018B Spike Glycoprotein Rbd Bound to the P. Nathusii ACE2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Merbecovirus PNNL2018B Spike Glycoprotein Rbd Bound to the P. Nathusii ACE2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn904 b:64.8 occ:1.00 NE2 A:HIS378 2.4 7.9 1.0 NE2 A:HIS374 2.8 7.7 1.0 OE2 A:GLU402 2.9 7.6 1.0 OE1 A:GLU402 3.1 7.6 1.0 CD2 A:HIS374 3.3 7.9 1.0 CE1 A:HIS378 3.3 7.4 1.0 CD2 A:HIS378 3.4 7.9 1.0 CD A:GLU402 3.4 7.5 1.0 CE1 A:HIS374 4.0 7.4 1.0 OE2 A:GLU375 4.2 8.9 1.0 ND1 A:HIS378 4.4 7.0 1.0 CG A:HIS378 4.4 7.5 1.0 CG A:HIS374 4.6 7.7 1.0 CG A:GLU402 4.8 7.2 1.0 ND1 A:HIS374 4.9 7.3 1.0 CD A:GLU375 5.0 8.8 1.0

C.B.Ma, C.Liu, Y.J.Park, J.Tang, J.Chen, Q.Xiong, J.Lee, C.Stewart, D.Asarnow, J.Brown, M.A.Tortorici, X.Yang, Y.H.Sun, Y.M.Chen, X.Yu, J.Y.Si, P.Liu, F.Tong, M.L.Huang, J.Li, Z.L.Shi, Z.Deng, D.Veesler, H.Yan. Multiple Independent Acquisitions of ACE2 Usage in Mers-Related Coronaviruses. Cell 2025.
ISSN: ISSN 1097-4172
PubMed: 39922191
DOI: 10.1016/J.CELL.2024.12.031