3J92 | pdb_00003j92

Structure and assembly pathway of the ribosome quality control complex

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I	Ribosomal_L32p	e3j92I1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
H	Ribosomal_L32p	e3j92H1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
G	Ribosomal_L32p	e3j92G1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
F	Ribosomal_L32p	e3j92F1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
E	Ribosomal_L32p	e3j92E1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
RA [auth u]	Ribosomal_L32p	e3j92u1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
QA [auth t]	Ribosomal_L32p	e3j92t1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
PA [auth s]	Ribosomal_L32p	e3j92s1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
OA [auth r]	Mtrc-MtrF_II-IV_dom	e3j92r1	A: beta barrels	X: Alpha-beta plaits	H: Pseudouridine synthase	T: Pseudouridine synthase	F: Mtrc-MtrF_II-IV_dom	ECOD (v294.2)
NA [auth p]	Ribosomal_L32p	e3j92p1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
D	Ribosomal_L32p	e3j92D1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
MA [auth o]	Ribosomal_L32p	e3j92o1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
LA [auth m]	Ribosomal_L32p	e3j92m1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
KA [auth l]	Ribosomal_L32p	e3j92l1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
JA [auth k]	V_ATPase_I	e3j92k1	A: beta barrels	X: Alpha-beta plaits	H: Pseudouridine synthase	T: Pseudouridine synthase	F: V_ATPase_I	ECOD (v294.2)
IA [auth j]	Ribosomal_L32p	e3j92j1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
HA [auth i]	KAsynt_C_assoc	e3j92i1	A: beta barrels	X: Type II ABC importer transmembrane domain fold	H: Type II ABC importer transmembrane domain fold	T: Type II ABC importer transmembrane domain fold	F: KAsynt_C_assoc	ECOD (v294.2)
GA [auth h]	Ribosomal_L32p	e3j92h1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
FA [auth g]	V_ATPase_I	e3j92g1	A: beta barrels	X: Alpha-beta plaits	H: Pseudouridine synthase	T: Pseudouridine synthase	F: V_ATPase_I	ECOD (v294.2)
EA [auth f]	Ribosomal_L32p	e3j92f1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
DA [auth e]	Ribosomal_L32p	e3j92e1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
C	EryCIII-like_N	e3j92C1	A: beta barrels	X: Rubredoxin-like	H: Ferritin/Heme oxygenase	T: Heme oxygenase/Ribonucleotide reductase	F: EryCIII-like_N	ECOD (v294.2)
CA [auth d]	Ribosomal_L32p	e3j92d1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
BA [auth c]	Ribosomal_L32p	e3j92c1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
AA [auth b]	V_ATPase_I	e3j92b1	A: beta barrels	X: Alpha-beta plaits	H: Pseudouridine synthase	T: Pseudouridine synthase	F: V_ATPase_I	ECOD (v294.2)
Z [auth a]	Ribosomal_L32p	e3j92a1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
Y [auth Z]	Ribosomal_L32p	e3j92Z1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
X [auth Y]	Ribosomal_L32p	e3j92Y1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
W [auth X]	Ribosomal_L32p	e3j92X1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
V [auth W]	Ribosomal_L32p	e3j92W1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
U [auth V]	Ribosomal_L32p	e3j92V1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
T [auth U]	KAsynt_C_assoc	e3j92U1	A: beta barrels	X: Type II ABC importer transmembrane domain fold	H: Type II ABC importer transmembrane domain fold	T: Type II ABC importer transmembrane domain fold	F: KAsynt_C_assoc	ECOD (v294.2)
B	Ribosomal_L32p	e3j92B1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
S [auth T]	Ribosomal_L32p	e3j92T1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
R [auth S]	Ribosomal_L32p	e3j92S1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
Q [auth R]	Ribosomal_L19e_C	e3j92R1	A: beta barrels	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ribosomal_L19e_C	ECOD (v294.2)
P [auth Q]	Ribosomal_L32p	e3j92Q1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
O [auth P]	Ribosomal_L32p	e3j92P1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
N [auth O]	Ribosomal_L32p	e3j92O1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
M [auth N]	Ribosomal_L32p	e3j92N1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
L [auth M]	Ribosomal_L32p	e3j92M1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
K [auth L]	V_ATPase_I	e3j92L1	A: beta barrels	X: Alpha-beta plaits	H: Pseudouridine synthase	T: Pseudouridine synthase	F: V_ATPase_I	ECOD (v294.2)
J	Ribosomal_L32p	e3j92J1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)
A	Ribosomal_L32p	e3j92A1	A: beta barrels	X: Formyltransferase	H: Formyltransferase	T: Formyltransferase	F: Ribosomal_L32p	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
T [auth U]	PF05833	NFACT N-terminal and middle domains (NFACT_N)	NFACT N-terminal and middle domains	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I	uL16	-	-	-
H	uL6	-	-	-
G	eL8	-	-	-
F	eL30	-	-	-
CB [auth 8]	5.8S rRNA	-	-	-
BB [auth 7]	5S rRNA	-	-	-
E	eL6	-	-	-
AB [auth 5]	28S rRNA	-	-	-
ZA [auth 2]	tRNA	-	-	-
YA [auth 1]	nascent chain	-	-	-
UA [auth x], VA [auth y]	Listerin	-	-	-
TA [auth w], WA [auth z], XA [auth 0]	Listerin	ribonucleoprotein complex binding protein-containing complex binding binding ribosomal large subunit binding ribosome binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein ribonucleoprotein complex binding protein-containing complex binding binding ribosomal large subunit binding ribosome binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity	cellular component disassembly ribosome disassembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process cellular component organization organelle organization biosynthetic process organelle disassembly translational elongation cytoplasmic translation metabolic process cellular component disassembly ribosome disassembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process cellular component organization organelle organization biosynthetic process organelle disassembly translational elongation cytoplasmic translation metabolic process cellular process cytoplasmic translational elongation protein metabolic process macromolecule metabolic process cellular component organization or biogenesis rescue of stalled cytosolic ribosome protein autoubiquitination 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 catabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process ribosome-associated ubiquitin-dependent protein catabolic process	intracellular organelle cellular anatomical structure intracellular anatomical structure cytosolic ribosome organelle membraneless organelle intracellular membraneless organelle ribosome cytoplasm cytosol protein-containing complex RQC complex
RA [auth u], SA [auth v]	NEMF	ribonucleoprotein complex binding protein-containing complex binding binding ribosomal large subunit binding ribosome binding RNA binding nucleic acid binding alpha-aminoacyl-tRNA binding tRNA binding	cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport establishment of localization localization intercellular transport establishment of localization in cell cellular process nuclear export cellular component organization cellular component biogenesis cellular component assembly cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport establishment of localization localization intercellular transport establishment of localization in cell cellular process nuclear export cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis cellular component disassembly ribosome disassembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process organelle organization biosynthetic process organelle disassembly translational elongation cytoplasmic translation metabolic process cytoplasmic translational elongation protein metabolic process macromolecule metabolic process rescue of stalled cytosolic ribosome catabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process ribosome-associated ubiquitin-dependent protein catabolic process CAT tailing	intracellular organelle cellular anatomical structure intracellular anatomical structure cytosolic ribosome organelle membraneless organelle intracellular membraneless organelle ribosome cytoplasm cytosol protein-containing complex RQC complex membrane-bounded organelle nucleus intracellular organelle cellular anatomical structure intracellular anatomical structure cytosolic ribosome organelle membraneless organelle intracellular membraneless organelle ribosome cytoplasm cytosol protein-containing complex RQC complex membrane-bounded organelle nucleus intracellular membrane-bounded organelle
QA [auth t]	uL11	-	-	-
PA [auth s]	uL10	-	-	-
OA [auth r]	eL28	-	-	-
NA [auth p]	eL43	-	-	-
D	uL18	-	-	-
MA [auth o]	eL42	-	-	-
LA [auth m]	eL40	-	-	-
KA [auth l]	eL39	-	-	-
JA [auth k]	eL38	-	-	-
IA [auth j]	eL37	-	-	-
HA [auth i]	eL36	-	-	-
GA [auth h]	uL29	-	-	-
FA [auth g]	eL34	-	-	-
EA [auth f]	eL33	-	-	-
DA [auth e]	eL32	-	-	-
C	uL4	-	-	-
CA [auth d]	eL31	-	-	-
BA [auth c]	eL30	-	-	-
AA [auth b]	eL29	-	-	-
Z [auth a]	uL15	-	-	-
Y [auth Z]	eL27	-	-	-
X [auth Y]	uL24	-	-	-
W [auth X]	uL23	-	-	-
V [auth W]	eL24	-	-	-
U [auth V]	uL14	-	-	-
T [auth U]	eL22	-	-	-
B	uL3	-	-	-
S [auth T]	eL21	-	-	-
R [auth S]	eL20	-	-	-
Q [auth R]	eL19	-	-	-
P [auth Q]	eL18	-	-	-
O [auth P]	uL22	-	-	-
N [auth O]	uL13	-	-	-
M [auth N]	eL15	-	-	-
L [auth M]	eL14	-	-	-
K [auth L]	eL13	-	-	-
J	uL5	-	-	-
A	uL2	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
TA [auth w], WA [auth z], XA [auth 0]	IPR016024	Armadillo-type fold	Homologous Superfamily
TA [auth w], WA [auth z], XA [auth 0]	IPR039795	E3 ubiquitin-protein ligase listerin	Family
TA [auth w], WA [auth z], XA [auth 0]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
TA [auth w], WA [auth z], XA [auth 0]	IPR011016	Zinc finger, RING-CH-type	Domain
TA [auth w], WA [auth z], XA [auth 0]	IPR056241	E3 ubiquitin-protein ligase listerin, HEAT-repeats region	Domain
TA [auth w], WA [auth z], XA [auth 0]	IPR011989	Armadillo-like helical	Homologous Superfamily
TA [auth w], WA [auth z], XA [auth 0]	IPR054476	E3 ubiquitin-protein ligase listerin, N-terminal domain	Domain
TA [auth w], WA [auth z], XA [auth 0]	IPR054477	E3 ubiquitin-protein ligase listerin, HEAT repeat region	Domain
TA [auth w], WA [auth z], XA [auth 0]	IPR054478	E3 ubiquitin-protein ligase listerin, ubiquitin conjugating domain	Domain
TA [auth w], WA [auth z], XA [auth 0]	IPR039804	Listerin, zinc finger, RING-type	Domain
TA [auth w], WA [auth z], XA [auth 0]	IPR001841	Zinc finger, RING-type	Domain
RA [auth u], SA [auth v]	IPR008532	NFACT, RNA-binding domain	Domain
RA [auth u], SA [auth v]	IPR021846	NFACT protein, C-terminal	Domain
RA [auth u], SA [auth v]	IPR051608	Ribosome Quality Control Complex Subunit NEMF	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
TA [auth w], WA [auth z], XA [auth 0]	: O94822	hereditary spastic paraplegia pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia large cell medulloblastoma Pick disease ovarian cancer psoriasis
RA [auth u], SA [auth v]	: O60524	autism spectrum disorder glioblastoma malignant glioma ovarian cancer Pick disease Autism Spectrum Disorders hereditary spastic paraplegia medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia progressive supranuclear palsy dermatomyositis lymphoplasmacytic lymphoma osteosarcoma peripheral neuropathy psoriasis

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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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.