Annotations: 1S3S

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1s3sa1	All beta proteins	Double psi beta-barrel	ADC-like	Cdc48 N-terminal domain-like	Membrane fusion ATPase p97 N-terminal domain , P97-Nn	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1s3sa2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Extended AAA-ATPase domain	Membrane fusion ATPase VCP/p97	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1s3sa3	Alpha and beta proteins (a+b)	Cdc48 domain 2-like	Cdc48 domain 2-like	Cdc48 domain 2-like	Membrane fusion atpase p97 domain 2, P97-Nc	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d1s3sb1	All beta proteins	Double psi beta-barrel	ADC-like	Cdc48 N-terminal domain-like	Membrane fusion ATPase p97 N-terminal domain , P97-Nn	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d1s3sb2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Extended AAA-ATPase domain	Membrane fusion ATPase VCP/p97	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d1s3sb3	Alpha and beta proteins (a+b)	Cdc48 domain 2-like	Cdc48 domain 2-like	Cdc48 domain 2-like	Membrane fusion atpase p97 domain 2, P97-Nc	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d1s3sc1	All beta proteins	Double psi beta-barrel	ADC-like	Cdc48 N-terminal domain-like	Membrane fusion ATPase p97 N-terminal domain , P97-Nn	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d1s3sc2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Extended AAA-ATPase domain	Membrane fusion ATPase VCP/p97	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d1s3sc3	Alpha and beta proteins (a+b)	Cdc48 domain 2-like	Cdc48 domain 2-like	Cdc48 domain 2-like	Membrane fusion atpase p97 domain 2, P97-Nc	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d1s3sd1	All beta proteins	Double psi beta-barrel	ADC-like	Cdc48 N-terminal domain-like	Membrane fusion ATPase p97 N-terminal domain , P97-Nn	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d1s3sd2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Extended AAA-ATPase domain	Membrane fusion ATPase VCP/p97	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d1s3sd3	Alpha and beta proteins (a+b)	Cdc48 domain 2-like	Cdc48 domain 2-like	Cdc48 domain 2-like	Membrane fusion atpase p97 domain 2, P97-Nc	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d1s3se1	All beta proteins	Double psi beta-barrel	ADC-like	Cdc48 N-terminal domain-like	Membrane fusion ATPase p97 N-terminal domain , P97-Nn	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d1s3se2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Extended AAA-ATPase domain	Membrane fusion ATPase VCP/p97	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d1s3se3	Alpha and beta proteins (a+b)	Cdc48 domain 2-like	Cdc48 domain 2-like	Cdc48 domain 2-like	Membrane fusion atpase p97 domain 2, P97-Nc	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F	d1s3sf1	All beta proteins	Double psi beta-barrel	ADC-like	Cdc48 N-terminal domain-like	Membrane fusion ATPase p97 N-terminal domain , P97-Nn	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F	d1s3sf2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Extended AAA-ATPase domain	Membrane fusion ATPase VCP/p97	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F	d1s3sf3	Alpha and beta proteins (a+b)	Cdc48 domain 2-like	Cdc48 domain 2-like	Cdc48 domain 2-like	Membrane fusion atpase p97 domain 2, P97-Nc	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
G	d1s3sg_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	UBX domain	p47	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
I	d1s3si_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	UBX domain	p47	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
H	d1s3sh_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	UBX domain	p47	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Cdc48 domain 2-like	8032514	3000725	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8032512	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ADC-like	8032511	3001132	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like	8104156	3002834	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ADC-like	8032511	3001132	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like	8104156	3002834	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cdc48 domain 2-like	8032514	3000725	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RecA-like P-loop NTPases	8032512	3002019	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like	8104156	3002834	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cdc48 domain 2-like	8032514	3000725	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ADC-like	8032511	3001132	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RecA-like P-loop NTPases	8032512	3002019	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ADC-like	8032511	3001132	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RecA-like P-loop NTPases	8032512	3002019	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cdc48 domain 2-like	8032514	3000725	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like	8104156	3002834	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like	8104156	3002834	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ADC-like	8032511	3001132	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Cdc48 domain 2-like	8032514	3000725	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	RecA-like P-loop NTPases	8032512	3002019	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Cdc48 domain 2-like	8032514	3000725	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	ADC-like	8032511	3001132	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	RecA-like P-loop NTPases	8032512	3002019	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	DNA polymerases epsilon, N-terminal domain (Dpoe2NT)-like	8104156	3002834	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Ubiquitin-like	8033613	3000157	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Ubiquitin-like	8033613	3000157	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)
A	CDC48_N	e1s3sA8	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: CDC48_N	ECOD (1.6)
A	CDC48	e1s3sA7	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: CDC48	ECOD (1.6)
A	CDC48_2	e1s3sA6	A: a+b two layers	X: Cdc48 domain 2-like (From Topology)	H: Cdc48 domain 2-like (From Topology)	T: Cdc48 domain 2-like	F: CDC48_2	ECOD (1.6)
A	Sigma54_activat	e1s3sA5	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
B	CDC48_N	e1s3sB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: CDC48_N	ECOD (1.6)
B	CDC48	e1s3sB4	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: CDC48	ECOD (1.6)
B	CDC48_2	e1s3sB3	A: a+b two layers	X: Cdc48 domain 2-like (From Topology)	H: Cdc48 domain 2-like (From Topology)	T: Cdc48 domain 2-like	F: CDC48_2	ECOD (1.6)
B	Sigma54_activat	e1s3sB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
C	CDC48_N	e1s3sC8	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: CDC48_N	ECOD (1.6)
C	CDC48	e1s3sC7	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: CDC48	ECOD (1.6)
C	CDC48_2	e1s3sC6	A: a+b two layers	X: Cdc48 domain 2-like (From Topology)	H: Cdc48 domain 2-like (From Topology)	T: Cdc48 domain 2-like	F: CDC48_2	ECOD (1.6)
C	Sigma54_activat	e1s3sC5	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
D	CDC48_N	e1s3sD8	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: CDC48_N	ECOD (1.6)
D	CDC48	e1s3sD7	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: CDC48	ECOD (1.6)
D	CDC48_2	e1s3sD6	A: a+b two layers	X: Cdc48 domain 2-like (From Topology)	H: Cdc48 domain 2-like (From Topology)	T: Cdc48 domain 2-like	F: CDC48_2	ECOD (1.6)
D	Sigma54_activat	e1s3sD5	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
E	CDC48_N	e1s3sE8	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: CDC48_N	ECOD (1.6)
E	CDC48	e1s3sE7	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: CDC48	ECOD (1.6)
E	CDC48_2	e1s3sE6	A: a+b two layers	X: Cdc48 domain 2-like (From Topology)	H: Cdc48 domain 2-like (From Topology)	T: Cdc48 domain 2-like	F: CDC48_2	ECOD (1.6)
E	Sigma54_activat	e1s3sE5	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
F	CDC48_N	e1s3sF8	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: CDC48_N	ECOD (1.6)
F	CDC48	e1s3sF7	A: alpha arrays	X: Histone-like	H: Histone-related	T: AAA+ ATPase lid domain	F: CDC48	ECOD (1.6)
F	CDC48_2	e1s3sF6	A: a+b two layers	X: Cdc48 domain 2-like (From Topology)	H: Cdc48 domain 2-like (From Topology)	T: Cdc48 domain 2-like	F: CDC48_2	ECOD (1.6)
F	Sigma54_activat	e1s3sF5	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Sigma54_activat	ECOD (1.6)
G	UBX	e1s3sG1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: UBX	ECOD (1.6)
I	p47_UBX_like	e1s3sI2	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: p47_UBX_like	ECOD (1.6)
H	UBX	e1s3sH1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: UBX	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.10.330.10	Alpha Beta	Roll	Vcp-like ATPase	Chain A, domain 2	CATH (4.3.0)
A	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
B	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.10.330.10	Alpha Beta	Roll	Vcp-like ATPase	Chain A, domain 2	CATH (4.3.0)
B	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
C	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.10.330.10	Alpha Beta	Roll	Vcp-like ATPase	Chain A, domain 2	CATH (4.3.0)
C	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
D	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
D	3.10.330.10	Alpha Beta	Roll	Vcp-like ATPase	Chain A, domain 2	CATH (4.3.0)
D	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
E	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
E	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
E	3.10.330.10	Alpha Beta	Roll	Vcp-like ATPase	Chain A, domain 2	CATH (4.3.0)
E	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
F	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
F	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
F	3.10.330.10	Alpha Beta	Roll	Vcp-like ATPase	Chain A, domain 2	CATH (4.3.0)
F	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
G	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
H	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF02933	Cell division protein 48 (CDC48), domain 2 (CDC48_2)	Cell division protein 48 (CDC48), domain 2	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at t ...	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases Pfam:PF00004 is a substrate 185-residue recognition domain [1].	Domain
A, B, C, D, E A, B, C, D, E, F	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, B, C, D, E A, B, C, D, E, F	PF02359	Cell division protein 48 (CDC48), N-terminal domain (CDC48_N)	Cell division protein 48 (CDC48), N-terminal domain	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at t ...	This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases Pfam:PF00004 is a substrate 185-residue recognition domain [1].	Domain
A, B, C, D, E A, B, C, D, E, F	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
G, H, I	PF00789	UBX domain (UBX)	UBX domain	This domain is present in ubiquitin-regulatory proteins and is a general Cdc48-interacting module [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Transitional endoplasmic reticulum ATPase (TER ATPase) (15S Mg(2+)- ATPase p97 subunit) (Valosin containing protein) (VCP) [Contains: Valosin]	polyubiquitin modification-dependent protein binding protein binding binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding protein phosphatase binding phosphatase binding enzyme binding ubiquitin-specific protease binding protease binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding polyubiquitin modification-dependent protein binding protein binding binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding protein phosphatase binding phosphatase binding enzyme binding ubiquitin-specific protease binding protease binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ADP binding ubiquitin-modified protein reader activity protein-macromolecule adaptor activity ubiquitin-like protein reader activity molecular adaptor activity ubiquitin protein ligase binding ubiquitin-like protein ligase binding identical protein binding protein domain specific binding protein-containing complex binding BAT3 complex binding lipid binding enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity deubiquitinase activator activity peptidase activator activity 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 MHC class I protein binding signaling receptor binding MHC protein binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process protein-DNA covalent cross-linking repair metabolic process macromolecule metabolic process DNA repair cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process protein-DNA covalent cross-linking repair metabolic process macromolecule metabolic process DNA repair cellular component disassembly catabolic process macroautophagy protein-containing complex organization autophagy protein-containing complex disassembly cellular component organization autophagosome maturation cellular component organization or biogenesis process utilizing autophagic mechanism proteolysis involved in protein catabolic process response to nitrogen compound proteasomal protein catabolic process protein catabolic process macromolecule catabolic process ERAD pathway response to chemical proteolysis protein metabolic process response to endoplasmic reticulum stress regulation of biological process positive regulation of cellular component organization regulation of cellular process regulation of cellular component organization positive regulation of cellular component biogenesis biological regulation positive regulation of biological process regulation of cellular component biogenesis cellular component biogenesis positive regulation of protein-containing complex assembly regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly positive regulation of cellular process cellular response to heat response to heat response to abiotic stimulus response to temperature stimulus interstrand cross-link repair translesion synthesis postreplication repair nucleobase-containing compound biosynthetic process DNA synthesis involved in DNA repair macromolecule biosynthetic process nucleic acid biosynthetic process biosynthetic process DNA biosynthetic process positive regulation of proteasomal protein catabolic process positive regulation of protein metabolic process proteasome-mediated ubiquitin-dependent protein catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process positive regulation of macromolecule metabolic process regulation of protein metabolic process regulation of macromolecule metabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process regulation of metabolic process regulation of 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 localization cellular localization transport establishment of localization in cell intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization Golgi vesicle transport vesicle-mediated transport cellular response to arsenic-containing substance response to oxygen-containing compound response to arsenic-containing substance cellular response to oxygen-containing compound cellular response to chemical stimulus response to arsenite ion cellular response to arsenite ion hippo signaling signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction negative regulation of cellular process signal transduction regulation of signaling negative regulation of response to stimulus negative regulation of hippo signaling negative regulation of signal transduction regulation of response to stimulus regulation of cell communication regulation of hippo signaling cytoplasm protein quality control protein quality control for misfolded or incompletely synthesized proteins aggresome assembly inclusion body assembly nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process nucleotide metabolic process NAD metabolic process NADH metabolic process purine-containing compound metabolic process purine nucleotide metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process phosphorus metabolic process pyridine nucleotide metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process positive regulation of phosphate metabolic process purine ribonucleoside triphosphate biosynthetic process positive regulation of nucleotide biosynthetic process regulation of nucleotide biosynthetic process regulation of ATP metabolic process ribonucleotide biosynthetic process purine nucleoside triphosphate biosynthetic process regulation of small molecule metabolic process positive regulation of purine nucleotide biosynthetic process regulation of phosphate metabolic process regulation of nucleotide metabolic process regulation of nucleobase-containing compound metabolic process ribose phosphate biosynthetic process positive regulation of nucleobase-containing compound metabolic process positive regulation of phosphorus metabolic process regulation of purine nucleotide metabolic process ribonucleoside triphosphate biosynthetic process positive regulation of ATP metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process regulation of phosphorus metabolic process nucleoside triphosphate metabolic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process ribose phosphate metabolic process ATP metabolic process ATP biosynthetic process positive regulation of nucleotide metabolic process ribonucleotide metabolic process positive regulation of biosynthetic process purine ribonucleoside triphosphate metabolic process purine-containing compound biosynthetic process ribonucleoside triphosphate metabolic process purine nucleoside triphosphate metabolic process regulation of biosynthetic process carbohydrate derivative biosynthetic process regulation of purine nucleotide biosynthetic process nucleoside triphosphate biosynthetic process positive regulation of purine nucleotide metabolic process positive regulation of ATP biosynthetic process regulation of ATP biosynthetic process positive regulation of small molecule metabolic process cellular response to misfolded protein response to misfolded protein cellular response to topologically incorrect protein response to topologically incorrect protein aerobic respiration cellular respiration oxidative phosphorylation energy derivation by oxidation of organic compounds positive regulation of oxidative phosphorylation regulation of generation of precursor metabolites and energy generation of precursor metabolites and energy regulation of cellular respiration regulation of aerobic respiration positive regulation of cellular respiration regulation of oxidative phosphorylation protein-RNA complex disassembly organelle organization protein-RNA complex organization organelle disassembly stress granule disassembly flavin-containing compound metabolic process flavin adenine dinucleotide catabolic process organophosphate catabolic process flavin adenine dinucleotide metabolic process nucleoside phosphate catabolic process nucleobase-containing compound catabolic process flavin-containing compound catabolic process nucleotide catabolic process viral genome replication viral process viral life cycle protein localization regulation of localization protein localization to chromatin regulation of protein localization protein localization to chromosome regulation of cellular localization protein localization to organelle cellular macromolecule localization macromolecule localization regulation of protein localization to chromatin regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization regulation of biological quality regulation of mitochondrial membrane potential positive regulation of mitochondrial membrane potential positive regulation of membrane potential regulation of membrane potential negative regulation of smoothened signaling pathway regulation of smoothened signaling pathway cell surface receptor signaling pathway smoothened signaling pathway protein exit from endoplasmic reticulum establishment of protein localization nitrogen compound transport endoplasmic reticulum to cytosol transport protein transport retrograde protein transport, ER to cytosol intracellular protein transport negative regulation of protein localization to chromatin negative regulation of protein localization endoplasmic reticulum stress-induced pre-emptive quality control positive regulation of Lys63-specific deubiquitinase activity protein deubiquitination regulation of protein modification process regulation of catalytic activity positive regulation of peptidase activity positive regulation of post-translational protein modification positive regulation of molecular function positive regulation of protein modification process protein modification by small protein removal regulation of protein modification by small protein conjugation or removal regulation of protein K63-linked deubiquitination positive regulation of protein K63-linked deubiquitination positive regulation of protein modification by small protein conjugation or removal regulation of post-translational protein modification protein K63-linked deubiquitination regulation of peptidase activity positive regulation of protein deubiquitination positive regulation of catalytic activity regulation of molecular function positive regulation of hydrolase activity regulation of hydrolase activity regulation of protein deubiquitination positive regulation of cell communication positive regulation of signal transduction regulation of non-canonical NF-kappaB signal transduction positive regulation of response to stimulus intracellular signaling cassette non-canonical NF-kappaB signal transduction positive regulation of intracellular signal transduction positive regulation of non-canonical NF-kappaB signal transduction positive regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway positive regulation of Wnt signaling pathway Wnt signaling pathway positive regulation of canonical Wnt signaling pathway regulation of Wnt signaling pathway double-strand break repair endosome to lysosome transport lysosomal transport endosomal transport endosome to lysosome transport via multivesicular body sorting pathway multivesicular body sorting pathway vacuolar transport endosome transport via multivesicular body sorting pathway	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol synapse cell junction glutamatergic synapse perinuclear region of cytoplasm membrane-bounded organelle protein-containing complex organelle subcompartment membrane membrane protein complex VCP-NPL4-UFD1 AAA ATPase complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol synapse cell junction glutamatergic synapse perinuclear region of cytoplasm membrane-bounded organelle protein-containing complex organelle subcompartment membrane membrane protein complex VCP-NPL4-UFD1 AAA ATPase complex intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule membraneless organelle supramolecular complex cytoplasmic stress granule myelin sheath Derlin-1 retrotranslocation complex nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen catalytic complex peptidase complex proteasome complex endopeptidase complex intracellular protein-containing complex ATPase complex VCP-NSFL1C complex lipid droplet site of double-strand break site of DNA damage chromosome
G, H, I	p47 protein	binding lipid binding protein binding ubiquitin binding ubiquitin-like protein binding ATPase binding enzyme binding	membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle localization establishment of mitotic spindle localization establishment of spindle localization membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle localization establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell cell cycle microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of localization establishment of cell polarity organelle organization mitotic cell cycle process establishment of mitotic spindle orientation microtubule-based process cytoskeleton organization membrane biogenesis nuclear membrane reassembly membrane assembly nuclear membrane organization cellular component biogenesis nucleus organization cellular component assembly nuclear envelope organization endomembrane system organization autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization metabolic process process utilizing autophagic mechanism regulation of cellular process centrosome separation positive regulation of biological process mitotic centrosome separation centrosome cycle positive regulation of cell cycle process regulation of cell cycle positive regulation of cellular process regulation of biological process mitotic nuclear division microtubule organizing center organization regulation of cell cycle process organelle fission biological regulation positive regulation of cell cycle regulation of mitotic centrosome separation nuclear division positive regulation of mitotic centrosome separation proteolysis involved in protein catabolic process primary metabolic 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 proteolysis ubiquitin-dependent protein catabolic process protein metabolic process macromolecule metabolic process Golgi organization protein localization protein localization to microtubule cytoskeleton regulation of localization regulation of protein localization regulation of protein localization to centrosome negative regulation of biological process protein localization to microtubule organizing center regulation of cellular localization cellular macromolecule localization macromolecule localization protein localization to cytoskeleton protein localization to organelle negative regulation of cellular process negative regulation of protein localization to centrosome protein localization to centrosome negative regulation of protein localization	membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm membraneless organelle intracellular membraneless organelle membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm membraneless organelle intracellular membraneless organelle chromosome spindle pole centrosome spindle centrosome microtubule organizing center cytoskeleton spindle pole microtubule cytoskeleton protein-containing complex VCP-NSFL1C complex cytosol nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR003959	ATPase, AAA-type, core	Domain
A, B, C, D, E A, B, C, D, E, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR029067	CDC48 domain 2-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR005938	AAA ATPase, CDC48 family	Family
A, B, C, D, E A, B, C, D, E, F	IPR003338	CDC48, N-terminal subdomain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR004201	CDC48, domain 2	Domain
A, B, C, D, E A, B, C, D, E, F	IPR009010	Aspartate decarboxylase-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR003593	AAA+ ATPase domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR041569	AAA ATPase, AAA+ lid domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR050168	AAA ATPase domain-containing protein	Family
A, B, C, D, E A, B, C, D, E, F	IPR003960	ATPase, AAA-type, conserved site	Conserved Site
G, H, I	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
G, H, I	IPR036241	NSFL1 cofactor p47, SEP domain superfamily	Homologous Superfamily
G, H, I	IPR009060	UBA-like superfamily	Homologous Superfamily
G, H, I	IPR001012	UBX domain	Domain
G, H, I	IPR012989	SEP domain	Domain