5FG1

Structure of the conserved yeast listerin (Ltn1) selenomethionine-substituted N-terminal domain, TRIGONAL FORM

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF22958	e5fg1A1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF22958	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF22958	E3 ubiquitin-protein ligase listerin, N-terminal domain (Ltn1_1st)	E3 ubiquitin-protein ligase listerin, N-terminal domain	This domain is found at the N-terminal end of E3 ubiquitin -protein ligase listerin from Saccharomyces cerevisiae (Ltn1) and similar eukaryotic proteins. Ltn1 is a component of the ribosome quality control complex (RQC), a ribosome-associated complex ...	This domain is found at the N-terminal end of E3 ubiquitin -protein ligase listerin from Saccharomyces cerevisiae (Ltn1) and similar eukaryotic proteins. Ltn1 is a component of the ribosome quality control complex (RQC), a ribosome-associated complex that mediates ubiquitination and extraction of incompletely synthesised nascent chains for proteasomal degradation. This domain is predominantly composed of alpha -helices that are arranged into HEAT repeats, each consisting of two antiparallel alpha-helices that pack against each other in a repeating array [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	E3 ubiquitin-protein ligase listerin	ribonucleoprotein complex binding protein-containing complex binding binding ribosomal large subunit binding ribosome binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity transferase activity catalytic activity ubiquitin-protein transferase activity cation binding transition metal ion binding ribonucleoprotein complex binding protein-containing complex binding binding ribosomal large subunit binding ribosome binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity transferase activity catalytic activity ubiquitin-protein transferase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding ubiquitin-like protein ligase activity ubiquitin protein ligase activity	organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process protein metabolic process macromolecule metabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process metabolic process protein metabolic process macromolecule metabolic process subtelomeric heterochromatin formation regulation of cellular process cellular biosynthetic process negative regulation of biological process telomere organization negative regulation of cellular metabolic process cellular component organization protein-DNA complex organization chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation protein-containing complex organization epigenetic regulation of gene expression cellular metabolic process negative regulation of metabolic process biological regulation chromosome organization regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression organelle organization negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process cellular process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process cellular component disassembly ribosome disassembly rescue of stalled ribosome organonitrogen compound biosynthetic process translation organelle disassembly translational elongation proteasomal protein catabolic process protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal proteasome-mediated ubiquitin-dependent protein catabolic process ribosome-associated ubiquitin-dependent protein catabolic process	intracellular organelle intracellular anatomical structure cytosolic ribosome organelle intracellular non-membrane-bounded organelle ribosome cytoplasm cellular anatomical entity cytosol non-membrane-bounded organelle protein-containing complex RQC complex chromosome chromosome, telomeric region intracellular organelle intracellular anatomical structure cytosolic ribosome organelle intracellular non-membrane-bounded organelle ribosome cytoplasm cellular anatomical entity cytosol non-membrane-bounded organelle protein-containing complex RQC complex chromosome chromosome, telomeric region chromosomal region membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR016024	Armadillo-type fold	Homologous Superfamily
A	IPR039795	E3 ubiquitin-protein ligase listerin	Family
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR011016	Zinc finger, RING-CH-type	Domain
A	IPR039804	Listerin, zinc finger, RING-type	Domain
A	IPR001841	Zinc finger, RING-type	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.