Zinc in PDB 8wor: Cryo-Em Structure of Human SIDT1 Protein with C2 Symmetry at Neutral pH

The structure of Cryo-Em Structure of Human SIDT1 Protein with C2 Symmetry at Neutral pH also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of Human SIDT1 Protein with C2 Symmetry at Neutral pH (pdb code 8wor). 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 Human SIDT1 Protein with C2 Symmetry at Neutral pH, PDB code: 8wor:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Human SIDT1 Protein with C2 Symmetry at Neutral pH


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 Human SIDT1 Protein with C2 Symmetry at Neutral pH within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:140.9 occ:1.00 O A:HOH1001 1.9 109.0 1.0 NE2 A:HIS563 2.3 88.2 1.0 NE2 A:HIS796 2.3 101.6 1.0 NE2 A:HIS800 2.3 93.0 1.0 CD2 A:HIS796 2.9 97.0 1.0 CE1 A:HIS800 3.1 87.6 1.0 CE1 A:HIS563 3.1 82.1 1.0 CD2 A:HIS563 3.4 92.1 1.0 CD2 A:HIS800 3.4 93.7 1.0 CE1 A:HIS796 3.5 100.8 1.0 CG A:HIS796 4.2 94.5 1.0 ND1 A:HIS800 4.3 90.7 1.0 ND1 A:HIS563 4.3 76.6 1.0 ND1 A:HIS796 4.4 100.7 1.0 CG A:HIS563 4.4 81.4 1.0 CG A:HIS800 4.5 92.5 1.0 CD1 A:TRP799 4.8 85.5 1.0 O A:HOH1002 4.9 110.8 1.0 NE1 A:TRP799 5.0 93.6 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Human SIDT1 Protein with C2 Symmetry at Neutral pH


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 Human SIDT1 Protein with C2 Symmetry at Neutral pH within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn901 b:140.8 occ:1.00 O B:HOH1001 1.9 104.8 1.0 NE2 B:HIS563 2.3 86.0 1.0 NE2 B:HIS796 2.3 99.7 1.0 NE2 B:HIS800 2.3 95.0 1.0 CD2 B:HIS796 2.9 96.0 1.0 CE1 B:HIS800 3.1 88.8 1.0 CE1 B:HIS563 3.1 82.6 1.0 CD2 B:HIS563 3.4 89.8 1.0 CD2 B:HIS800 3.4 94.8 1.0 CE1 B:HIS796 3.5 100.5 1.0 OG B:SER559 3.7 107.2 1.0 CG B:HIS796 4.2 95.1 1.0 ND1 B:HIS800 4.3 91.5 1.0 ND1 B:HIS563 4.3 76.7 1.0 ND1 B:HIS796 4.4 101.3 1.0 CG B:HIS563 4.4 80.6 1.0 CG B:HIS800 4.5 93.6 1.0 O B:HOH1002 4.8 106.1 1.0 CD1 B:TRP799 4.8 84.1 1.0 NE1 B:TRP799 4.9 95.0 1.0

W.Liu, M.Tang, J.Wang, F.Wang, G.Song, X.Zhang, S.Wu, H.Ru. Structural Insights Into Cholesterol Transport and Hydrolase Activity of A Putative Human Rna Transport Protein SIDT1. Cell Discov V. 10 21 2024.
ISSN: ESSN 2056-5968
PubMed: 38378654
DOI: 10.1038/S41421-024-00647-2