Zinc in PDB 7vg3: Cryo-Em Structure of Arabidopsis DCL3 in Complex with A 30-Bp Rna

The structure of Cryo-Em Structure of Arabidopsis DCL3 in Complex with A 30-Bp Rna also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of Arabidopsis DCL3 in Complex with A 30-Bp Rna (pdb code 7vg3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Cryo-Em Structure of Arabidopsis DCL3 in Complex with A 30-Bp Rna, PDB code: 7vg3:

Zinc binding site 1 out of 1 in the Cryo-Em Structure of Arabidopsis DCL3 in Complex with A 30-Bp Rna


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 Arabidopsis DCL3 in Complex with A 30-Bp Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn2003 b:63.4 occ:1.00 ND1 A:HIS1123 2.0 41.4 1.0 SG A:CYS1093 2.5 61.9 1.0 SG A:CYS1119 2.6 46.0 1.0 CE1 A:HIS1123 2.8 41.4 1.0 SG A:CYS1091 3.0 56.5 1.0 CB A:CYS1093 3.0 61.9 1.0 CG A:HIS1123 3.1 41.4 1.0 CB A:CYS1119 3.2 46.0 1.0 CB A:HIS1123 3.6 41.4 1.0 NE2 A:HIS1123 4.0 41.4 1.0 CB A:CYS1091 4.0 56.5 1.0 CD2 A:HIS1123 4.2 41.4 1.0 CA A:CYS1093 4.3 61.9 1.0 N A:CYS1093 4.4 61.9 1.0 CA A:CYS1091 4.4 56.5 1.0 CB A:MET1121 4.5 49.0 1.0 SD A:MET1121 4.6 49.0 1.0 N A:HIS1123 4.7 41.4 1.0 CA A:CYS1119 4.7 46.0 1.0 CA A:HIS1123 4.8 41.4 1.0 CG A:MET1121 4.8 49.0 1.0 N A:MET1121 5.0 49.0 1.0

Q.Wang, Y.Xue, L.Zhang, Z.Zhong, S.Feng, C.Wang, L.Xiao, Z.Yang, C.J.Harris, Z.Wu, J.Zhai, M.Yang, S.Li, S.E.Jacobsen, J.Du. Mechanism of Sirna Production By A Plant Dicer-Rna Complex in Dicing-Competent Conformation. Science L4546 2021.
ISSN: ESSN 1095-9203
PubMed: 34648373
DOI: 10.1126/SCIENCE.ABL4546