4DBG

Crystal structure of HOIL-1L-UBL complexed with a HOIP-UBA derivative

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	HOIP UBA tandem repeat region-like	8045974	4004794	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	UBA-like	8092498	3001235	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	UBA-like	8092497	3001235	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	UBA-like	8092515	3001235	SCOP2 (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	ubiquitin_2	e4dbgA1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: ubiquitin_2	ECOD (1.6)
B	HOIP-UBA_C	e4dbgB2	A: alpha arrays	X: RuvA-C	H: RuvA-C, UBA, CRAL/TRIO-N, HBS1 (From Topology)	T: RuvA-C, UBA, CRAL/TRIO-N, HBS1	F: HOIP-UBA_C	ECOD (1.6)
B	HOIP-UBA_N	e4dbgB1	A: alpha arrays	X: RuvA-C	H: RuvA-C, UBA, CRAL/TRIO-N, HBS1 (From Topology)	T: RuvA-C, UBA, CRAL/TRIO-N, HBS1	F: HOIP-UBA_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
B	6.10.140.1100	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
B	1.10.8.10	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF16678	HOIP UBA domain pair (HOIP-UBA)	HOIP UBA domain pair	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	RanBP-type and C3HC4-type zinc finger-containing protein 1	enzyme regulator activity ubiquitin ligase activator activity enzyme activator activity ubiquitin-protein transferase regulator activity molecular function activator activity molecular function regulator activity ubiquitin-protein transferase activator activity transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity protein binding binding enzyme regulator activity ubiquitin ligase activator activity enzyme activator activity ubiquitin-protein transferase regulator activity molecular function activator activity molecular function regulator activity ubiquitin-protein transferase activator activity transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity protein binding binding ubiquitin binding ubiquitin-like protein binding molecular sequestering activity protein sequestering activity aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity transferase activity catalytic activity ubiquitin-protein transferase activity cation binding ion binding metal ion binding small molecule binding identical protein binding	protein polyubiquitination primary metabolic process protein ubiquitination macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein linear polyubiquitination protein modification by small protein conjugation or removal cellular response to stimulus protein polyubiquitination primary metabolic process protein ubiquitination macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein linear polyubiquitination protein modification by small protein conjugation or removal cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling immune response-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway immune response T cell receptor signaling pathway immune system process regulation of immune response antigen receptor-mediated signaling pathway activation of immune response maintenance of protein location protein localization localization cellular localization cellular macromolecule localization macromolecule localization cytoplasmic sequestering of protein maintenance of location regulation of programmed cell death extrinsic apoptotic signaling pathway positive regulation of apoptotic signaling pathway positive regulation of programmed cell death regulation of apoptotic process positive regulation of extrinsic apoptotic signaling pathway cell death positive regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway apoptotic process programmed cell death regulation of apoptotic signaling pathway biological process involved in interspecies interaction between organisms response to other organism defense response response to external stimulus response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus catabolic process proteolysis involved in protein 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 proteolysis ubiquitin-dependent protein catabolic process negative regulation of DNA-binding transcription factor activity RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process negative regulation of NF-kappaB transcription factor activity nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process negative regulation of molecular function regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of molecular function regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process necroptotic process negative regulation of programmed cell death negative regulation of necroptotic process negative regulation of biological process programmed necrotic cell death regulation of necroptotic process negative regulation of programmed necrotic cell death negative regulation of cellular process regulation of programmed necrotic cell death positive regulation of DNA-binding transcription factor activity positive regulation of NF-kappaB transcription factor activity positive regulation of molecular function regulation of non-canonical NF-kappaB signal transduction non-canonical NF-kappaB signal transduction positive regulation of non-canonical NF-kappaB signal transduction	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol LUBAC complex protein-containing complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex
B	RING finger protein 31	polyubiquitin modification-dependent protein binding protein binding binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding ubiquitin binding ubiquitin-like protein binding linear polyubiquitin binding K63-linked polyubiquitin modification-dependent protein binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity polyubiquitin modification-dependent protein binding protein binding binding K48-linked polyubiquitin modification-dependent protein binding modification-dependent protein binding ubiquitin binding ubiquitin-like protein binding linear polyubiquitin binding K63-linked polyubiquitin modification-dependent protein 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 ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding identical protein binding	protein polyubiquitination primary metabolic process protein ubiquitination macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein linear polyubiquitination protein modification by small protein conjugation or removal cellular response to stimulus protein polyubiquitination primary metabolic process protein ubiquitination macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein linear polyubiquitination protein modification by small protein conjugation or removal cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling immune response-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway immune response T cell receptor signaling pathway immune system process regulation of immune response antigen receptor-mediated signaling pathway activation of immune response biological process involved in interspecies interaction between organisms response to other organism defense response response to external stimulus response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus protein localization regulation of localization establishment of protein localization cellular localization regulation of protein localization protein targeting regulation of protein targeting to mitochondrion positive regulation of establishment of protein localization localization cellular macromolecule localization positive regulation of protein targeting to mitochondrion regulation of establishment of protein localization establishment of localization regulation of establishment of protein localization to mitochondrion establishment of protein localization to organelle regulation of protein targeting regulation of cellular localization macromolecule localization protein localization to organelle protein localization to mitochondrion positive regulation of protein localization protein targeting to mitochondrion establishment of protein localization to mitochondrion positive regulation of establishment of protein localization to mitochondrion regulation of defense response regulation of response to biotic stimulus catabolic process regulation of response to external stimulus macroautophagy positive regulation of xenophagy autophagy xenophagy regulation of autophagy positive regulation of metabolic process positive regulation of response to external stimulus regulation of response to stress positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of autophagy regulation of xenophagy regulation of catabolic process positive regulation of catabolic process regulation of macroautophagy positive regulation of defense response regulation of metabolic process CD40 signaling pathway necroptotic process negative regulation of programmed cell death negative regulation of necroptotic process negative regulation of biological process programmed necrotic cell death regulation of programmed cell death cell death regulation of necroptotic process negative regulation of programmed necrotic cell death negative regulation of cellular process regulation of programmed necrotic cell death programmed cell death positive regulation of DNA-binding transcription factor activity positive regulation of NF-kappaB transcription factor activity RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process positive regulation of molecular function nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of molecular function regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity regulation of macromolecule biosynthetic process regulation of DNA-templated transcription	cell periphery protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane plasma membrane signaling receptor complex membrane protein complex CD40 receptor complex receptor complex intracellular anatomical structure cytoplasm cytosol LUBAC complex cell periphery protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane plasma membrane signaling receptor complex membrane protein complex CD40 receptor complex receptor complex intracellular anatomical structure cytoplasm cytosol LUBAC complex ubiquitin ligase complex catalytic complex transferase complex intracellular protein-containing complex cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR044066	TRIAD supradomain	Domain
A	IPR047557	Heme-oxidized IRP2 ubiquitin ligase 1, Rcat domain	Domain
A	IPR051628	Linear Ubiquitination-Associated E3 Ligases	Family
A	IPR036443	Zinc finger, RanBP2-type superfamily	Homologous Superfamily
A	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
A	IPR000626	Ubiquitin-like domain	Domain
A	IPR027370	Zinc finger, RING-type, eukaryotic	Domain
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR047558	Heme-oxidized IRP2 ubiquitin ligase 1, BRcat domain	Domain
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR001876	Zinc finger, RanBP2-type	Domain
A	IPR001841	Zinc finger, RING-type	Domain
A	IPR047559	Heme-oxidized IRP2 ubiquitin ligase 1, modified RING finger, HC subclass	Domain
B	IPR002867	IBR domain	Domain
B	IPR044066	TRIAD supradomain	Domain
B	IPR036339	PUB-like domain superfamily	Homologous Superfamily
B	IPR026254	E3 ubiquitin-protein ligase RNF31-like	Family
B	IPR047541	E3 ubiquitin-protein ligase RNF31-like, modified RING finger, HC subclass	Domain
B	IPR032065	E3 ubiquitin-protein ligase RNF31, UBA-like domain	Domain
B	IPR047539	E3 ubiquitin-protein ligase RNF31, UBA domain	Domain
B	IPR015940	Ubiquitin-associated domain	Domain
B	IPR036443	Zinc finger, RanBP2-type superfamily	Homologous Superfamily
B	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
B	IPR018997	PUB domain	Domain
B	IPR047542	E3 ubiquitin-protein ligase RNF31-like, Rcat domain	Domain
B	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
B	IPR047543	E3 ubiquitin-protein ligase RNF31-like, Bbox1 zinc finger	Domain
B	IPR040641	E3 ubiquitin-protein ligase RNF31, PUB domain	Domain
B	IPR047540	E3 ubiquitin-protein ligase RNF31-like, BRcat domain	Domain
B	IPR001876	Zinc finger, RanBP2-type	Domain
B	IPR041031	RNF31, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9BYM8	polyglucosan body myopathy 1 with or without immunodeficiency Cardiomegaly arthrogryposis juvenile dermatomyositis medulloblastoma plasma cell myeloma tuberculosis dermatomyositis lymphoplasmacytic lymphoma osteosarcoma glioblastoma malignant ependymoma ovarian cancer rhabdomyolysis
B	Pharos: Q96EP0	prostate cancer Prostatic Neoplasms