3J0Q | pdb_00003j0q

Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 10.6A cryo-em map: rotated PRE state 2

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
Q [auth k]	SCOP2B Superfamily	RL5-like	8099392	3001709	SCOP2B (2022-06-29)
O [auth B]	SCOP2B Superfamily	Ribosomal protein L1p/L10e-like	8098448	3001911	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I [auth L]	Ribosom_S12_S23	e3j0qL1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: Ribosom_S12_S23	ECOD (1.6)
H [auth S]	Ribosomal_S19	e3j0qS1	A: a+b two layers	X: Ribosomal protein S19 (From Topology)	H: Ribosomal protein S19 (From Topology)	T: Ribosomal protein S19	F: Ribosomal_S19	ECOD (1.6)
Q [auth k]	Ribosomal_L5_C	e3j0qk2	A: a+b two layers	X: Ribosomal protein L5 (From Topology)	H: Ribosomal protein L5 (From Topology)	T: Ribosomal protein L5	F: Ribosomal_L5_C	ECOD (1.6)
P [auth J]	Ribosomal_L16	e3j0qJ1	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Ribosomal protein L10e	F: Ribosomal_L16	ECOD (1.6)
O [auth B]	Ribosomal_L1_2nd_1	e3j0qB4	A: a+b two layers	X: a+b domain in Ribosomal protein L1 (From Topology)	H: a+b domain in Ribosomal protein L1 (From Topology)	T: a+b domain in Ribosomal protein L1	F: Ribosomal_L1_2nd_1	ECOD (1.6)
O [auth B]	Ribosomal_L1_1st_1	e3j0qB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Rossmann-like domain in Ribosomal protein L1 (From Topology)	T: Rossmann-like domain in Ribosomal protein L1	F: Ribosomal_L1_1st_1	ECOD (1.6)
J [auth X]	Ribosomal_S30	e3j0qX1	A: extended segments	X: 40S ribosomal protein S30 (S30e) (From Topology)	H: 40S ribosomal protein S30 (S30e) (From Topology)	T: 40S ribosomal protein S30 (S30e)	F: Ribosomal_S30	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
O [auth B]	PF00687	Ribosomal protein L1p/L10e family (Ribosomal_L1)	Ribosomal protein L1p/L10e family	This family includes prokaryotic L1 and eukaryotic L10.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth L]	Ribosomal protein S23	-	-	-
H [auth S]	Ribosomal protein S15	-	-	-
G [auth h]	40S ribosomal RNA fragment	-	-	-
F [auth f]	40S ribosomal RNA fragment	-	-	-
E [auth G]	40S ribosomal RNA fragment	-	-	-
D [auth g]	40S ribosomal RNA fragment	-	-	-
C [auth d]	40S ribosomal RNA fragment	-	-	-
U [auth w]	mRNA fragment	-	-	-
B [auth c]	40S ribosomal RNA fragment	-	-	-
S [auth y]	mRNA fragment	-	-	-
R [auth Y], T [auth W]	tRNA	-	-	-
Q [auth k]	Ribosomal protein L11	RNA binding binding rRNA binding nucleic acid binding structural molecule activity structural constituent of ribosome	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component biogenesis cellular component organization ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly ribosomal large subunit assembly protein-containing complex assembly cellular component organization or biogenesis ribosome assembly	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome large ribosomal subunit membrane-bounded organelle nucleus intracellular membrane-bounded organelle
P [auth J]	Ribosomal protein L10	-	-	-
O [auth B]	Ribosomal protein L10a	RNA binding binding nucleic acid binding structural molecule activity structural constituent of ribosome	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process establishment of organelle localization cellular localization ribonucleoprotein complex biogenesis primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process establishment of organelle localization cellular localization ribonucleoprotein complex biogenesis nucleocytoplasmic transport transport nuclear transport ribosomal subunit export from nucleus ribosomal large subunit export from nucleus intracellular transport establishment of localization cellular component biogenesis localization ribosome biogenesis organelle localization establishment of localization in cell cellular component organization or biogenesis nuclear export ribosome localization	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome large ribosomal subunit
N [auth 7]	60S ribosomal RNA fragment	-	-	-
M [auth 9]	60S ribosomal RNA fragment	-	-	-
L [auth 3]	60S ribosomal RNA fragment	-	-	-
K [auth 2]	60S ribosomal RNA fragment	-	-	-
J [auth X]	Ribosomal protein S30	-	-	-
A [auth a]	40S ribosomal RNA fragment	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
Q [auth k]	IPR020929	Large ribosomal subunit protein uL5, conserved site	Conserved Site
Q [auth k]	IPR022803	Large ribosomal subunit protein uL5 domain superfamily	Homologous Superfamily
Q [auth k]	IPR031309	Large ribosomal subunit protein uL5, C-terminal	Domain
Q [auth k]	IPR031310	Large ribosomal subunit protein uL5, N-terminal	Domain
Q [auth k]	IPR002132	Large ribosomal subunit protein uL5	Family
O [auth B]	IPR050257	Large ribosomal subunit protein eL8/uL1-like	Family
O [auth B]	IPR023673	Large ribosomal subunit protein uL1, conserved site	Conserved Site
O [auth B]	IPR016095	Large ribosomal subunit protein uL1, 3-layer alpha/beta-sandwich domain	Homologous Superfamily
O [auth B]	IPR023674	Ribosomal protein uL1-like	Homologous Superfamily
O [auth B]	IPR002143	Large ribosomal subunit protein uL1	Family
O [auth B]	IPR028364	Ribosomal protein uL1/ribosomal biogenesis protein	Family