Calcium in PDB 8woq: Cryo-Em Structure of Human SIDT1 Protein with C1 Symmetry at Neutral pH

The structure of Cryo-Em Structure of Human SIDT1 Protein with C1 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 C1 Symmetry at Neutral pH (pdb code 8woq). 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 C1 Symmetry at Neutral pH, PDB code: 8woq:
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 C1 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 C1 Symmetry at Neutral pH within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca902 b:160.9 occ:1.00 O A:MET221 2.8 143.2 1.0 O A:PRO223 2.8 135.7 1.0 OD1 A:ASN219 3.2 122.2 1.0 ND2 A:ASN234 4.0 132.1 1.0 C A:PRO223 4.0 130.6 1.0 OE1 A:GLN218 4.0 104.8 1.0 C A:MET221 4.0 142.4 1.0 O A:ASN219 4.2 113.8 1.0 CG A:ASN219 4.4 116.4 1.0 CA A:VAL224 4.5 102.6 1.0 CB A:GLN218 4.6 87.5 1.0 N A:VAL224 4.6 107.1 1.0 CE2 A:TYR225 4.7 104.1 1.0 CG2 A:VAL224 4.7 106.3 1.0 C A:ASN219 4.7 110.4 1.0 C A:CYS222 4.8 145.6 1.0 N A:ASN219 4.8 111.3 1.0 N A:PRO223 4.9 128.2 1.0 N A:MET221 4.9 140.3 1.0 CA A:CYS222 4.9 146.1 1.0 N A:CYS222 4.9 145.1 1.0 CD2 A:TYR225 4.9 96.2 1.0 CA A:MET221 5.0 141.9 1.0

Calcium binding site 2 out of 2 in the Cryo-Em Structure of Human SIDT1 Protein with C1 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 C1 Symmetry at Neutral pH within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca902 b:171.2 occ:1.00 O B:MET221 2.7 139.3 1.0 O B:PRO223 3.0 132.9 1.0 OD1 B:ASN219 3.1 118.9 1.0 O B:ASN219 3.6 115.5 1.0 OE1 B:GLN218 3.9 109.3 1.0 C B:MET221 4.0 139.0 1.0 C B:PRO223 4.1 128.3 1.0 ND2 B:ASN234 4.1 122.9 1.0 CG B:ASN219 4.3 115.6 1.0 CB B:GLN218 4.4 91.4 1.0 C B:ASN219 4.4 110.4 1.0 CA B:VAL224 4.5 102.2 1.0 N B:ASN219 4.6 106.1 1.0 CG2 B:VAL224 4.7 107.4 1.0 N B:MET221 4.7 134.2 1.0 CE2 B:TYR225 4.7 105.0 1.0 N B:VAL224 4.7 110.5 1.0 CA B:MET221 4.9 136.8 1.0 N B:CYS222 4.9 149.1 1.0 CA B:CYS222 4.9 149.1 1.0 CD2 B:TYR225 4.9 100.1 1.0 CD B:GLN218 4.9 100.3 1.0 C B:ILE220 4.9 117.4 1.0 C B:CYS222 4.9 148.5 1.0 O B:ILE220 5.0 126.8 1.0 CA B:ASN219 5.0 106.0 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