6YLF | pdb_00006ylf

Rix1-Rea1 pre-60S particle - Rea1, body 3 (rigid body refinement, composite structure of Rea1 ring and tail)

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)
B [auth xP1]		e6ylfxP11	A: alpha arrays	X: putative RnfG subunit of electron transport complex	H: putative RnfG subunit of electron transport complex	T: Aspartate/ornithine carbamoyltransferase	F:	ECOD (v295.2)
A [auth AP1]	MIF	e6ylfAP11	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: MIF	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth AP1]	PF07728	AAA domain (dynein-related subfamily) (AAA_5)	AAA domain (dynein-related subfamily)	This Pfam entry includes some of the AAA proteins not detected by the Pfam:PF00004 model.	Domain
A [auth AP1]	PF17865	Midasin AAA lid domain (AAA_lid_5)	Midasin AAA lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains. This lid domain is found in midasin proteins.	Domain
A [auth AP1]	PF21108	Midasin AAA+ ATPase lid domain (MDN1_4th)	Midasin AAA+ ATPase lid domain	Mdn1 is an essential AAA (ATPase associated with various activities) protein that removes assembly factors from distinct precursors of the ribosomal 60S subunit [2]. This entry represents the AAA domain lid domain.	Domain
A [auth AP1]	PF17867	Midasin AAA lid domain (AAA_lid_7)	Midasin AAA lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains. This lid domain is found in midasin proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth xP1]	Ribosome assembly protein 4	-	cellular component organization protein-RNA complex organization protein-containing complex organization protein-containing complex remodeling protein-RNA complex remodeling cellular process cellular component organization or biogenesis ribonucleoprotein complex biogenesis organelle assembly membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component biogenesis ribosome biogenesis cellular component organization protein-RNA complex organization protein-containing complex organization protein-containing complex remodeling protein-RNA complex remodeling cellular process cellular component organization or biogenesis ribonucleoprotein complex biogenesis organelle assembly membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component biogenesis ribosome biogenesis organelle organization cellular component assembly ribosomal large subunit assembly protein-containing complex assembly ribosome assembly	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen
A [auth AP1]	Midasin	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity	establishment of organelle localization regulation of localization cellular localization ribonucleoprotein complex biogenesis regulation of cellular process nucleocytoplasmic transport transport nuclear transport cellular component biogenesis localization ribosome biogenesis organelle localization establishment of localization in cell cellular component organization or biogenesis establishment of organelle localization regulation of localization cellular localization ribonucleoprotein complex biogenesis regulation of cellular process nucleocytoplasmic transport transport nuclear transport cellular component biogenesis localization ribosome biogenesis organelle localization establishment of localization in cell cellular component organization or biogenesis nuclear export ribosome localization ribonucleoprotein complex localization regulation of intracellular transport regulation of ribonucleoprotein complex localization regulation of biological process regulation of transport ribosomal subunit export from nucleus biological regulation regulation of ribosomal subunit export from nucleus intracellular transport regulation of nucleocytoplasmic transport establishment of localization regulation of cellular localization cellular process RNA metabolic process primary metabolic process rRNA processing gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process metabolic process macromolecule metabolic process RNA processing rRNA metabolic process cellular component organization protein-RNA complex organization protein-containing complex organization protein-containing complex remodeling protein-RNA complex remodeling organelle assembly membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly organelle organization cellular component assembly ribosomal large subunit assembly protein-containing complex assembly ribosome assembly	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen membraneless organelle nuclear lumen nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth xP1]	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
B [auth xP1]	IPR001680	WD40 repeat	Repeat
B [auth xP1]	IPR019775	WD40 repeat, conserved site	Conserved Site
B [auth xP1]	IPR012972	NLE	Domain
B [auth xP1]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B [auth xP1]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A [auth AP1]	IPR048617	Midasin, lid domain 4	Domain
A [auth AP1]	IPR011704	ATPase, dynein-related, AAA domain	Domain
A [auth AP1]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
A [auth AP1]	IPR025662	Sigma-54 interaction domain, ATP-binding site 1	Binding Site
A [auth AP1]	IPR040848	Midasin, AAA lid domain 7	Domain
A [auth AP1]	IPR012099	Midasin	Family
A [auth AP1]	IPR003593	AAA+ ATPase domain	Domain
A [auth AP1]	IPR041190	Midasin AAA lid domain 5	Domain
A [auth AP1]	IPR002035	von Willebrand factor, type A	Domain
A [auth AP1]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily