Zinc in PDB 8xc1: C. Elegans SID1 in Complex with Dsrna

The binding sites of Zinc atom in the C. Elegans SID1 in Complex with Dsrna (pdb code 8xc1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the C. Elegans SID1 in Complex with Dsrna, PDB code: 8xc1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the C. Elegans SID1 in Complex with Dsrna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of C. Elegans SID1 in Complex with Dsrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:86.5 occ:1.00 NE2 A:HIS744 2.3 40.8 1.0 NE2 A:HIS740 2.3 42.8 1.0 NE2 A:HIS540 2.3 42.2 1.0 OD1 A:ASP551 2.8 57.7 1.0 CE1 A:HIS744 3.0 32.7 1.0 CD2 A:HIS540 3.1 34.7 1.0 CD2 A:HIS740 3.2 43.4 1.0 OD2 A:ASP551 3.2 68.4 1.0 CE1 A:HIS740 3.3 46.3 1.0 CE1 A:HIS540 3.4 35.6 1.0 CG A:ASP551 3.4 59.3 1.0 OG A:SER536 3.4 49.8 1.0 CD2 A:HIS744 3.5 38.5 1.0 ND1 A:HIS744 4.2 34.2 1.0 CG A:HIS540 4.3 34.7 1.0 ND1 A:HIS740 4.4 42.0 1.0 CG A:HIS740 4.4 39.0 1.0 ND1 A:HIS540 4.4 46.6 1.0 CB A:SER536 4.4 35.7 1.0 CG A:HIS744 4.5 30.0 1.0 CD2 A:TYR539 4.6 44.6 1.0 NE1 A:TRP743 4.8 34.0 1.0 O A:SER536 4.8 56.2 1.0 CB A:ASP551 4.9 57.8 1.0 CD1 A:TRP743 4.9 28.0 1.0 CE2 A:TYR539 4.9 36.7 1.0

Zinc binding site 2 out of 2 in the C. Elegans SID1 in Complex with Dsrna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of C. Elegans SID1 in Complex with Dsrna within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn801 b:86.5 occ:1.00 NE2 B:HIS744 2.3 40.8 1.0 NE2 B:HIS740 2.3 42.8 1.0 NE2 B:HIS540 2.3 42.2 1.0 OD1 B:ASP551 2.8 57.7 1.0 CE1 B:HIS744 3.0 32.7 1.0 CD2 B:HIS540 3.1 34.7 1.0 CD2 B:HIS740 3.2 43.4 1.0 OD2 B:ASP551 3.2 68.4 1.0 CE1 B:HIS740 3.3 46.3 1.0 CE1 B:HIS540 3.4 35.6 1.0 CG B:ASP551 3.4 59.3 1.0 OG B:SER536 3.4 49.8 1.0 CD2 B:HIS744 3.5 38.5 1.0 ND1 B:HIS744 4.2 34.2 1.0 CG B:HIS540 4.3 34.7 1.0 ND1 B:HIS740 4.4 42.0 1.0 CG B:HIS740 4.4 39.0 1.0 ND1 B:HIS540 4.4 46.6 1.0 CB B:SER536 4.4 35.7 1.0 CG B:HIS744 4.5 30.0 1.0 CD2 B:TYR539 4.6 44.6 1.0 NE1 B:TRP743 4.8 34.0 1.0 O B:SER536 4.8 56.2 1.0 CB B:ASP551 4.9 57.8 1.0 CD1 B:TRP743 4.9 28.0 1.0 CE2 B:TYR539 4.9 36.7 1.0

R.Wang, Y.Cong, D.Qian, C.Yan, D.Gong. Structural Basis For Double-Stranded Rna Recognition By SID1. Nucleic Acids Res. 2024.
ISSN: ESSN 1362-4962
PubMed: 38742627
DOI: 10.1093/NAR/GKAE395