Zinc in PDB 8z0p: Cryo-Em Structure of Human ELAC2

All present enzymatic activity of Cryo-Em Structure of Human ELAC2:
3.1.26.11;

The binding sites of Zinc atom in the Cryo-Em Structure of Human ELAC2 (pdb code 8z0p). 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 ELAC2, PDB code: 8z0p:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Human ELAC2


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 ELAC2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:90.6 occ:1.00 O1 A:PO4903 2.0 63.8 1.0 ND1 A:HIS548 2.1 75.6 1.0 O2 A:PO4903 2.1 98.3 1.0 CE1 A:HIS548 2.2 72.4 1.0 CG A:HIS548 2.3 69.0 1.0 NE2 A:HIS548 2.3 65.6 1.0 CD2 A:HIS548 2.4 71.1 1.0 P A:PO4903 2.5 102.0 1.0 HD1 A:HIS548 2.6 71.3 1.0 HE1 A:HIS548 2.7 71.1 1.0 HE1 A:HIS644 2.7 56.7 1.0 HD2 A:HIS548 3.0 63.1 1.0 HE1 A:HIS546 3.0 53.3 1.0 HB2 A:HIS548 3.3 55.7 1.0 CB A:HIS548 3.3 54.6 1.0 CE1 A:HIS546 3.4 55.1 1.0 CE1 A:HIS644 3.5 54.7 1.0 HB3 A:HIS548 3.5 58.6 1.0 O3 A:PO4903 3.6 85.8 1.0 O4 A:PO4903 3.8 94.2 1.0 NE2 A:HIS546 4.0 51.7 1.0 HE2 A:HIS546 4.0 50.2 1.0 ND1 A:HIS546 4.1 56.1 1.0 ZN A:ZN902 4.1 114.5 1.0 HE2 A:HIS644 4.2 51.9 1.0 NE2 A:HIS644 4.2 51.7 1.0 HD1 A:HIS546 4.3 55.0 1.0 ND1 A:HIS644 4.4 48.6 1.0 OD2 A:ASP666 4.7 70.2 1.0 CA A:HIS548 4.7 56.2 1.0 HA A:HIS548 4.8 58.1 1.0 HD2 A:HIS551 4.9 54.6 1.0 CD2 A:HIS546 4.9 52.4 1.0 HE2 A:HIS551 5.0 51.4 1.0 CG A:HIS546 5.0 44.4 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Human ELAC2


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 ELAC2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:114.5 occ:1.00 HE2 A:HIS551 1.6 51.4 1.0 OD2 A:ASP666 1.9 70.2 1.0 O3 A:PO4903 1.9 85.8 1.0 NE2 A:HIS551 2.3 50.8 1.0 HE2 A:HIS724 2.4 57.2 1.0 O1 A:PO4903 2.4 63.8 1.0 P A:PO4903 2.5 102.0 1.0 HE2 A:HIS546 2.8 50.2 1.0 CG A:ASP666 2.8 65.4 1.0 NE2 A:HIS724 2.9 54.8 1.0 CE1 A:HIS551 3.1 53.6 1.0 O4 A:PO4903 3.2 94.2 1.0 OD1 A:ASP666 3.2 56.7 1.0 HE1 A:HIS551 3.3 53.7 1.0 CD2 A:HIS551 3.3 55.4 1.0 HE1 A:HIS724 3.4 59.2 1.0 CE1 A:HIS724 3.4 62.2 1.0 NE2 A:HIS546 3.5 51.7 1.0 HD2 A:HIS551 3.5 54.6 1.0 HE1 A:HIS702 3.6 58.6 1.0 HE1 A:HIS546 3.6 53.3 1.0 CD2 A:HIS724 3.9 52.2 1.0 CE1 A:HIS546 3.9 55.1 1.0 CB A:ASP666 4.0 60.2 1.0 O2 A:PO4903 4.0 98.3 1.0 HB3 A:ASP666 4.0 57.9 1.0 ZN A:ZN901 4.1 90.6 1.0 HB2 A:ASP666 4.2 59.4 1.0 HD2 A:HIS724 4.2 57.1 1.0 ND1 A:HIS551 4.3 55.9 1.0 CG A:HIS551 4.4 54.6 1.0 CE1 A:HIS702 4.4 56.6 1.0 HB2 A:ASP550 4.4 54.4 1.0 HE2 A:HIS702 4.5 61.4 1.0 ND1 A:HIS724 4.5 59.5 1.0 HB2 A:HIS548 4.6 55.7 1.0 HE2 A:HIS644 4.7 51.9 1.0 CG A:HIS724 4.8 53.9 1.0 CD2 A:HIS546 4.8 52.4 1.0 NE2 A:HIS702 4.8 62.0 1.0 HB3 A:HIS548 5.0 58.6 1.0 HD1 A:HIS551 5.0 54.7 1.0

C.Xue, J.Tian, Y.Chen, Z.Liu. Structural Insights Into Human ELAC2 As A Trna 3' Processing Enzyme. Nucleic Acids Res. V. 52 13434 2024.
ISSN: ESSN 1362-4962
PubMed: 39494506
DOI: 10.1093/NAR/GKAE1014