Calcium 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:

Zinc

(Zn)

2 atoms

The binding sites of Calcium 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 Calcium atom.
In total 2 binding sites of Calcium where determined in the Cryo-Em Structure of Human SIDT1 Protein with C2 Symmetry at Neutral pH, PDB code: 8wor:
Jump to Calcium binding site number: 1; 2;

Calcium 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 Calcium with other atoms in the Ca 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:Ca902 b:148.3 occ:1.00 O A:MET221 2.6 131.0 1.0 O A:PRO223 2.9 119.8 1.0 OD1 A:ASN219 3.1 104.9 1.0 O A:ASN219 3.7 100.9 1.0 C A:MET221 3.8 128.0 1.0 OE1 A:GLN218 4.0 89.2 1.0 ND2 A:ASN234 4.0 113.1 1.0 C A:PRO223 4.0 116.0 1.0 CG A:ASN219 4.3 101.3 1.0 CA A:VAL224 4.5 91.3 1.0 C A:ASN219 4.5 94.0 1.0 CB A:GLN218 4.6 75.3 1.0 N A:MET221 4.6 124.5 1.0 CE2 A:TYR225 4.7 90.4 1.0 N A:VAL224 4.7 97.5 1.0 CA A:MET221 4.7 125.2 1.0 N A:ASN219 4.7 91.4 1.0 CG2 A:VAL224 4.7 92.6 1.0 N A:CYS222 4.8 131.9 1.0 CA A:CYS222 4.8 131.8 1.0 C A:CYS222 4.8 131.5 1.0 CD2 A:TYR225 4.9 82.5 1.0 C A:ILE220 4.9 105.2 1.0 N A:PRO223 4.9 108.9 1.0

Calcium 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 Calcium with other atoms in the Ca 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:Ca902 b:148.7 occ:1.00 O B:MET221 2.6 129.9 1.0 O B:PRO223 2.9 121.8 1.0 OD1 B:ASN219 3.1 103.8 1.0 O B:ASN219 3.6 100.0 1.0 C B:MET221 3.8 127.2 1.0 OE1 B:GLN218 4.0 86.6 1.0 C B:PRO223 4.0 117.8 1.0 ND2 B:ASN234 4.0 112.0 1.0 CG B:ASN219 4.3 100.0 1.0 C B:ASN219 4.5 91.8 1.0 CA B:VAL224 4.5 89.3 1.0 CB B:GLN218 4.6 73.2 1.0 N B:MET221 4.7 124.9 1.0 N B:ASN219 4.7 88.3 1.0 CE2 B:TYR225 4.7 88.2 1.0 N B:VAL224 4.7 96.1 1.0 CA B:CYS222 4.7 132.8 1.0 CA B:MET221 4.7 125.1 1.0 CG2 B:VAL224 4.7 90.0 1.0 N B:CYS222 4.7 132.1 1.0 C B:CYS222 4.8 132.8 1.0 CD2 B:TYR225 4.9 80.5 1.0 C B:ILE220 4.9 105.5 1.0 N B:PRO223 4.9 111.5 1.0 O B:ILE220 4.9 110.2 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