Zinc in PDB 9ea0: Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1)

The binding sites of Zinc atom in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1) (pdb code 9ea0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1), PDB code: 9ea0:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1404 b:80.2 occ:1.00 ND1 A:HIS617 2.3 40.9 1.0 NE2 A:HIS680 2.3 56.5 1.0 O A:HOH1870 2.5 45.8 1.0 CE1 A:HIS617 3.1 38.7 1.0 CE1 A:HIS680 3.2 55.4 1.0 SD A:MET684 3.2 67.6 1.0 CG A:HIS617 3.3 36.3 1.0 CD2 A:HIS680 3.3 55.3 1.0 CG A:MET684 3.4 55.9 1.0 CB A:HIS617 3.6 33.0 1.0 NE2 A:HIS617 4.3 37.0 1.0 OG1 A:THR683 4.3 54.2 1.0 ND1 A:HIS680 4.3 55.3 1.0 CD2 A:HIS617 4.3 33.8 1.0 CG A:HIS680 4.4 52.1 1.0 CA A:HIS617 4.4 32.0 1.0 CE A:MET684 4.7 50.2 1.0 CB A:MET684 4.9 54.2 1.0

Zinc binding site 2 out of 6 in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1405 b:50.0 occ:1.00 ND1 A:HIS273 2.2 13.5 1.0 OG1 A:THR292 2.3 19.9 1.0 NE2 A:HIS289 2.5 17.4 1.0 CD2 A:HIS289 3.0 15.4 1.0 CG A:HIS273 3.1 12.7 1.0 CE1 A:HIS273 3.2 14.2 1.0 CB A:THR292 3.3 12.6 1.0 CB A:HIS273 3.3 9.3 1.0 CG2 A:THR292 3.4 11.3 1.0 O A:ALA291 3.5 14.6 1.0 CE1 A:HIS289 3.6 18.6 1.0 CA A:THR292 3.8 11.5 1.0 CA A:HIS273 3.8 10.4 1.0 O A:HOH1536 3.8 21.9 1.0 C A:ALA291 4.2 13.2 1.0 CG A:HIS289 4.3 17.5 1.0 CD2 A:HIS273 4.3 12.1 1.0 NE2 A:HIS273 4.3 16.1 1.0 N A:THR292 4.3 14.8 1.0 ND1 A:HIS289 4.5 20.7 1.0 O A:VAL272 4.5 10.4 1.0 N A:HIS273 4.6 9.4 1.0 C A:VAL272 4.9 8.9 1.0 C A:HIS273 5.0 9.5 1.0

Zinc binding site 3 out of 6 in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1404 b:80.2 occ:1.00 ND1 B:HIS617 2.3 40.9 1.0 NE2 B:HIS680 2.3 56.5 1.0 O B:HOH1871 2.5 46.1 1.0 CE1 B:HIS617 3.2 38.7 1.0 CE1 B:HIS680 3.2 55.4 1.0 SD B:MET684 3.2 67.6 1.0 CG B:HIS617 3.3 36.3 1.0 CD2 B:HIS680 3.3 55.3 1.0 CG B:MET684 3.4 55.9 1.0 CB B:HIS617 3.6 33.0 1.0 NE2 B:HIS617 4.3 37.0 1.0 OG1 B:THR683 4.3 54.2 1.0 ND1 B:HIS680 4.3 55.3 1.0 CD2 B:HIS617 4.3 33.8 1.0 CG B:HIS680 4.4 52.1 1.0 CA B:HIS617 4.4 32.0 1.0 CE B:MET684 4.7 50.2 1.0 CB B:MET684 4.9 54.2 1.0

Zinc binding site 4 out of 6 in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1405 b:50.0 occ:1.00 ND1 B:HIS273 2.2 13.5 1.0 OG1 B:THR292 2.3 19.9 1.0 NE2 B:HIS289 2.5 17.4 1.0 CD2 B:HIS289 3.0 15.4 1.0 CG B:HIS273 3.1 12.7 1.0 CE1 B:HIS273 3.2 14.2 1.0 CB B:THR292 3.3 12.6 1.0 CB B:HIS273 3.3 9.3 1.0 CG2 B:THR292 3.4 11.3 1.0 O B:ALA291 3.5 14.6 1.0 CE1 B:HIS289 3.6 18.6 1.0 CA B:THR292 3.8 11.5 1.0 CA B:HIS273 3.8 10.4 1.0 O B:HOH1536 3.8 21.4 1.0 C B:ALA291 4.2 13.2 1.0 CG B:HIS289 4.3 17.5 1.0 CD2 B:HIS273 4.3 12.1 1.0 NE2 B:HIS273 4.3 16.1 1.0 N B:THR292 4.3 14.8 1.0 ND1 B:HIS289 4.5 20.7 1.0 O B:VAL272 4.5 10.4 1.0 N B:HIS273 4.6 9.4 1.0 C B:VAL272 4.9 8.9 1.0 C B:HIS273 5.0 9.5 1.0

Zinc binding site 5 out of 6 in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1405 b:80.2 occ:1.00 ND1 C:HIS617 2.3 40.9 1.0 NE2 C:HIS680 2.3 56.5 1.0 O C:HOH1870 2.5 45.3 1.0 CE1 C:HIS617 3.2 38.7 1.0 CE1 C:HIS680 3.2 55.4 1.0 SD C:MET684 3.2 67.6 1.0 CG C:HIS617 3.3 36.3 1.0 CD2 C:HIS680 3.3 55.3 1.0 CG C:MET684 3.4 55.9 1.0 CB C:HIS617 3.6 33.0 1.0 NE2 C:HIS617 4.3 37.0 1.0 OG1 C:THR683 4.3 54.2 1.0 ND1 C:HIS680 4.3 55.3 1.0 CD2 C:HIS617 4.3 33.8 1.0 CG C:HIS680 4.4 52.1 1.0 CA C:HIS617 4.4 32.0 1.0 CE C:MET684 4.7 50.2 1.0 CB C:MET684 4.9 54.2 1.0

Zinc binding site 6 out of 6 in the Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of the Prefusion HKU5-19S Spike Trimer (Conformation 1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn1406 b:50.0 occ:1.00 ND1 C:HIS273 2.2 13.5 1.0 OG1 C:THR292 2.3 19.9 1.0 NE2 C:HIS289 2.5 17.4 1.0 CD2 C:HIS289 3.0 15.4 1.0 CG C:HIS273 3.1 12.7 1.0 CE1 C:HIS273 3.2 14.2 1.0 CB C:THR292 3.3 12.6 1.0 CB C:HIS273 3.3 9.3 1.0 CG2 C:THR292 3.4 11.3 1.0 O C:ALA291 3.5 14.6 1.0 CE1 C:HIS289 3.6 18.6 1.0 CA C:THR292 3.8 11.5 1.0 CA C:HIS273 3.8 10.4 1.0 O C:HOH1536 3.8 20.0 1.0 C C:ALA291 4.2 13.2 1.0 CG C:HIS289 4.3 17.5 1.0 CD2 C:HIS273 4.3 12.1 1.0 NE2 C:HIS273 4.3 16.1 1.0 N C:THR292 4.3 14.8 1.0 ND1 C:HIS289 4.5 20.7 1.0 O C:VAL272 4.5 10.4 1.0 N C:HIS273 4.6 9.4 1.0 C C:VAL272 4.9 8.9 1.0 C C:HIS273 5.0 9.5 1.0

Y.J.Park, C.Liu, J.Lee, J.T.Brown, C.B.Ma, P.Liu, R.Gen, Q.Xiong, S.K.Zepeda, C.Stewart, A.Addetia, C.J.Craig, M.A.Tortorici, A.N.Alshukairi, T.N.Starr, H.Yan, D.Veesler. Molecular Basis of Convergent Evolution of ACE2 Receptor Utilization Among HKU5 Coronaviruses. Cell 2025.
ISSN: ISSN 1097-4172
PubMed: 39922192
DOI: 10.1016/J.CELL.2024.12.032