Annotations: 8RHN

Structure of the 55LCC ATPase 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)
P [auth J]	WD40	e8rhnJ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
O [auth I]	WD40	e8rhnI1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F [auth P]	WD40	e8rhnP1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E [auth O]		e8rhnO02	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F:	ECOD (v294.2)
N [auth H]	WD40	e8rhnH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
M [auth G]	WD40	e8rhnG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
L [auth F]	WD40	e8rhnF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
K [auth E]	WD40	e8rhnE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D [auth N]	WD40	e8rhnN1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C [auth M]	WD40	e8rhnM1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B [auth L]	WD40	e8rhnL1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A [auth K]		e8rhnK01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F:	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G [auth A], H [auth B]	PF15011	Ribosome biogenesis protein C1orf109-like (CA109-like)	Ribosome biogenesis protein C1orf109-like	Ribosome biogenesis protein C1orf109 is involved in the cytoplasmic maturation steps of pre-60S ribosomal particles by promoting the release of shuttling protein RSL24D1/RLP24 from the pre-ribosomal particles [2]. It has been first identified as the ...	Ribosome biogenesis protein C1orf109 is involved in the cytoplasmic maturation steps of pre-60S ribosomal particles by promoting the release of shuttling protein RSL24D1/RLP24 from the pre-ribosomal particles [2]. It has been first identified as the downstream target of a protein kinase, casein kinase 2 (CK2) which is upregulated in cancer cells. C1orf109 has been found upregulated in cancer cells and therefore, it has been suggested to be important in the regulation of cancer cell proliferation. The precise mechanism of CK2 targeting C1orf109 is not well characterised [1]. It is found to be localised in the nucleus and cytoplasm [1].	Domain
E [auth O], F [auth P], O [auth I], P [auth J]	PF17862	AAA+ lid domain (AAA_lid_3)	AAA+ lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.	Domain
E [auth O], F [auth P], O [auth I], P [auth J]	PF00004	ATPase family associated with various cellular activities (AAA) (AAA)	ATPase family associated with various cellular activities (AAA)	AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].	Domain
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	PF17862	AAA+ lid domain (AAA_lid_3)	AAA+ lid domain	This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.	Domain
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	PF00004	ATPase family associated with various cellular activities (AAA) (AAA)	ATPase family associated with various cellular activities (AAA)	AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth C], J [auth D]	Cyclin-dependent kinase 2-interacting protein	preribosome binding ribonucleoprotein complex binding protein-containing complex binding binding	cellular component biogenesis ribosome biogenesis regulation of biological process ribonucleoprotein complex biogenesis regulation of cellular process biological regulation regulation of ribosome biogenesis cellular process cellular component organization or biogenesis regulation of cellular component biogenesis nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process cellular component biogenesis ribosome biogenesis regulation of biological process ribonucleoprotein complex biogenesis regulation of cellular process biological regulation regulation of ribosome biogenesis cellular process cellular component organization or biogenesis regulation of cellular component biogenesis nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process ribosomal large subunit biogenesis cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair cell division	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
G [auth A], H [auth B]	cDNA FLJ55172	-	cellular component biogenesis ribosome biogenesis regulation of biological process ribonucleoprotein complex biogenesis regulation of cellular process biological regulation regulation of ribosome biogenesis cellular process cellular component organization or biogenesis regulation of cellular component biogenesis nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process cellular component biogenesis ribosome biogenesis regulation of biological process ribonucleoprotein complex biogenesis regulation of cellular process biological regulation regulation of ribosome biogenesis cellular process cellular component organization or biogenesis regulation of cellular component biogenesis nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process ribosomal large subunit biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle membraneless organelle nuclear lumen nucleoplasm
E [auth O], F [auth P], O [auth I], P [auth J]	ATPase family gene 2 protein homolog B	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 preribosome binding ribonucleoprotein complex binding protein-containing complex binding polyubiquitin modification-dependent protein binding protein binding modification-dependent protein 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 identical protein binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular component organization or biogenesis ribosomal large subunit biogenesis cellular component disassembly nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular component organization or biogenesis ribosomal large subunit biogenesis cellular component disassembly catabolic process protein-containing complex organization macroautophagy autophagy protein-containing complex disassembly cellular component organization autophagosome maturation process utilizing autophagic mechanism spindle disassembly microtubule cytoskeleton organization mitotic cell cycle mitotic spindle organization organelle organization mitotic cell cycle process organelle disassembly mitotic spindle disassembly microtubule-based process cell cycle cytoskeleton organization microtubule cytoskeleton organization involved in mitosis spindle organization cell cycle process regulation of biological process regulation of cellular process biological regulation regulation of ribosome biogenesis regulation of cellular component biogenesis 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 protein metabolic process cellular response to stimulus protein exit from endoplasmic reticulum cellular localization establishment of protein localization response to stimulus transport localization ERAD pathway intercellular transport cellular response to stress response to stress establishment of localization in cell intracellular protein localization response to endoplasmic reticulum stress endoplasmic reticulum to cytosol transport intracellular transport establishment of localization protein transport response to chemical retrograde protein transport, ER to cytosol macromolecule localization intracellular protein transport	membrane-bounded organelle protein-containing complex intracellular anatomical structure organelle subcompartment membrane membrane protein complex VCP-NPL4-UFD1 AAA ATPase complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network membrane-bounded organelle protein-containing complex intracellular anatomical structure organelle subcompartment membrane membrane protein complex VCP-NPL4-UFD1 AAA ATPase complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane cytosol cytoskeleton spindle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton nucleus
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	ATPase family gene 2 protein homolog A	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 preribosome binding ribonucleoprotein complex binding protein-containing complex 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	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation cellular developmental process cell differentiation cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular component organization or biogenesis ribosomal large subunit biogenesis regulation of biological process regulation of cellular process biological regulation regulation of ribosome biogenesis regulation of cellular component biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth C], J [auth D]	IPR023250	Cyclin-dependent kinase 2-interacting protein	Family
G [auth A], H [auth B]	IPR029159	Ribosome biogenesis protein C1orf109-like	Family
E [auth O], F [auth P], O [auth I], P [auth J]	IPR041569	AAA ATPase, AAA+ lid domain	Domain
E [auth O], F [auth P], O [auth I], P [auth J]	IPR050168	AAA ATPase domain-containing protein	Family
E [auth O], F [auth P], O [auth I], P [auth J]	IPR003960	ATPase, AAA-type, conserved site	Conserved Site
E [auth O], F [auth P], O [auth I], P [auth J]	IPR003593	AAA+ ATPase domain	Domain
E [auth O], F [auth P], O [auth I], P [auth J]	IPR003959	ATPase, AAA-type, core	Domain
E [auth O], F [auth P], O [auth I], P [auth J]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	IPR041569	AAA ATPase, AAA+ lid domain	Domain
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	IPR050168	AAA ATPase domain-containing protein	Family
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	IPR009010	Aspartate decarboxylase-like domain superfamily	Homologous Superfamily
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	IPR003960	ATPase, AAA-type, conserved site	Conserved Site
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	IPR003593	AAA+ ATPase domain	Domain
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	IPR003959	ATPase, AAA-type, core	Domain
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
I [auth C], J [auth D]	: Q9BW66	astrocytic tumor glioblastoma atypical teratoid rhabdoid tumor colorectal cancer
G [auth A], H [auth B]	: Q9NX04	endometrial carcinoma ovarian carcinoma
E [auth O], F [auth P], O [auth I], P [auth J]	: Q9BVQ7	chronic kidney disease medulloblastoma psoriasis epilepsy nonsyndromic genetic deafness lung cancer osteosarcoma
A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], A [auth K], B [auth L], C [auth M], D [auth N], K [auth E], L [auth F], M [auth G], N [auth H]	: Q8NB90	microcephaly-intellectual disability-sensorineural hearing loss-epilepsy-abnormal muscle tone syndrome intellectual disability schizophrenia acne epilepsy malignant glioma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma alopecia areata Epileptic encephalopathy large cell medulloblastoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor atypical teratoid rhabdoid tumor microcephaly-intellectual disability-sensorineural hearing loss-epilepsy-abnormal muscle tone syndrome intellectual disability schizophrenia acne epilepsy malignant glioma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma alopecia areata Epileptic encephalopathy large cell medulloblastoma medulloblastoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor atypical teratoid rhabdoid tumor glioblastoma malignant ependymoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

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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.