Zinc in PDB 8jun: Cryo-Em Structure of SIDT1 E555Q Mutant

The binding sites of Zinc atom in the Cryo-Em Structure of SIDT1 E555Q Mutant (pdb code 8jun). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of SIDT1 E555Q Mutant, PDB code: 8jun:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of SIDT1 E555Q Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of SIDT1 E555Q Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:53.3 occ:1.00 NE2 A:HIS563 2.0 38.7 1.0 OD1 A:ASP574 2.1 46.0 1.0 NE2 A:HIS791 2.1 35.4 1.0 NE2 A:HIS795 2.1 35.3 1.0 CE1 A:HIS795 2.9 35.3 1.0 CD2 A:HIS791 2.9 35.4 1.0 CD2 A:HIS563 2.9 38.7 1.0 CG A:ASP574 3.0 46.0 1.0 CE1 A:HIS563 3.1 38.7 1.0 CE1 A:HIS791 3.1 35.4 1.0 OD2 A:ASP574 3.2 46.0 1.0 CD2 A:HIS795 3.3 35.3 1.0 OG A:SER559 3.3 41.6 1.0 ND1 A:HIS795 4.1 35.3 1.0 CG A:HIS791 4.1 35.4 1.0 CG A:HIS563 4.1 38.7 1.0 ND1 A:HIS563 4.1 38.7 1.0 ND1 A:HIS791 4.2 35.4 1.0 CG A:HIS795 4.3 35.3 1.0 CB A:ASP574 4.4 46.0 1.0 CE2 A:TYR562 4.5 41.8 1.0 CD2 A:TYR562 4.6 41.8 1.0 CD1 A:TRP794 4.7 34.7 1.0 CB A:SER559 4.7 41.6 1.0 O A:ASP574 4.8 46.0 1.0 NE1 A:TRP794 4.8 34.7 1.0 CA A:ASP574 4.9 46.0 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of SIDT1 E555Q Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of SIDT1 E555Q Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn901 b:54.8 occ:1.00 NE2 B:HIS563 2.0 37.4 1.0 OD1 B:ASP574 2.1 46.2 1.0 NE2 B:HIS791 2.1 34.9 1.0 NE2 B:HIS795 2.1 34.1 1.0 CE1 B:HIS795 2.9 34.1 1.0 CD2 B:HIS791 2.9 34.9 1.0 CD2 B:HIS563 2.9 37.4 1.0 CG B:ASP574 3.0 46.2 1.0 CE1 B:HIS563 3.1 37.4 1.0 CE1 B:HIS791 3.1 34.9 1.0 OD2 B:ASP574 3.2 46.2 1.0 CD2 B:HIS795 3.3 34.1 1.0 OG B:SER559 3.3 39.8 1.0 ND1 B:HIS795 4.1 34.1 1.0 CG B:HIS791 4.1 34.9 1.0 CG B:HIS563 4.1 37.4 1.0 ND1 B:HIS563 4.1 37.4 1.0 ND1 B:HIS791 4.2 34.9 1.0 CG B:HIS795 4.3 34.1 1.0 CB B:ASP574 4.4 46.2 1.0 CE2 B:TYR562 4.5 40.4 1.0 CD2 B:TYR562 4.6 40.4 1.0 CD1 B:TRP794 4.7 33.3 1.0 CB B:SER559 4.7 39.8 1.0 O B:ASP574 4.8 46.2 1.0 NE1 B:TRP794 4.8 33.3 1.0 CA B:ASP574 4.9 46.2 1.0

C.R.Sun, D.Xu, F.Yang, Z.Hou, Y.Luo, C.Y.Zhang, G.Shan, G.Huang, X.Yao, Y.Chen, Q.Li, C.Z.Zhou. Human SIDT1 Mediates Dsrna Uptake Via Its Phospholipase Activity. Cell Res. 2023.
ISSN: ISSN 1001-0602
PubMed: 37932444
DOI: 10.1038/S41422-023-00889-X