MolNFT v2 · #226106 · protein + RNA

Cryo-EM structure of human ELAC2-pre-tRNA

8Z1G · Homo sapiens mitochondrion pre-tRNA-Tyr: “Cryo-EM structure of human ELAC2-pre-tRNA”. Electron microscopy at 3.7, 2 ligands (ZN, PO4), 13 pockets (best druggability 0.80). MolNFT v2 #226106 on GenesisL1: 3D structure, binding sites…

PDB: 8Z1G
Type: protein + RNA
Length: 756 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 3.7
Source: Homo sapiens; SYNTHETIC CONSTRUCT
Molecule: Homo sapiens mitochondrion pre-tRNA-Tyr; Zinc phosphodiesterase ELAC protein 2
EC: 3.1.26.11
UniProt: Q9BQ52
Ligands: ZN, PO4
Pockets: 13 · best druggability 0.80

Structure

electron microscopy · resolution 3.7 · 2 distinct chains · 32% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
T	Homo sapiens mitochondrion pre-tRNA-Tyr	rna	68	—	—
A	Zinc phosphodiesterase ELAC protein 2 (EC 3.1.26.11)	protein	688	32% helix, 20% strand	Q9BQ52

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains A
PO4 · Phosphate ion · ion · chains T, A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

13 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	575	0.80	0.87	58	PO4
2	426	0.74	0.84	58	empty
3	103	0.74	0.94	24	empty
4	404	0.66	0.80	42	empty
5	282	0.63	0.80	30	empty

Interfaces

1 interface between chains.

T–A · 1171 Å² buried · 16 hydrogen bonds · protein-nucleic

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q9BQ52
Elsewhere: RCSB PDB 8Z1G · PDBe 8Z1G · UniProt Q9BQ52

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