Annotations: 8KES

Cryo-EM structure of HRD1-SEL1LX3-XTP3B complex in C1 symmetry

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth C]	EF-hand_1, EF-hand_6, EF-hand_7	e8kesC1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: EF-hand_1, EF-hand_6, EF-hand_7	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth D], F [auth C]	PF08238	Sel1 repeat (Sel1)	Sel1 repeat	-	Repeat
C [auth E], G [auth F]	PF07915	Glucosidase II beta subunit-like protein (PRKCSH)	Glucosidase II beta subunit-like protein	-	Family
A, E [auth B]	PF25563	E3 ubiquitin-protein ligase synoviolin-like, TPR repeats (TPR_SYVN1_N)	E3 ubiquitin-protein ligase synoviolin-like, TPR repeats	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth D], F [auth C]	Protein sel-1 homolog 1	ubiquitin-like ligase-substrate adaptor activity enzyme-substrate adaptor activity protein-macromolecule adaptor activity molecular adaptor activity	regulation of protein stability biological regulation regulation of biological quality protein stabilization cellular response to stimulus catabolic process response to stimulus proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical regulation of protein stability biological regulation regulation of biological quality protein stabilization cellular response to stimulus catabolic process response to stimulus proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical response to stress cellular process metabolic process protein metabolic process macromolecule metabolic process response to endoplasmic reticulum stress establishment of protein localization transport secretion establishment of protein localization to extracellular region export from cell protein secretion establishment of localization protein localization to extracellular region localization secretion by cell protein transport macromolecule localization intracellular protein localization neutral lipid metabolic process triglyceride metabolic process glycerolipid metabolic process acylglycerol metabolic process lipid metabolic process retrograde protein transport, ER to cytosol	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum endoplasmic reticulum quality control compartment cytoplasm intracellular membrane-bounded organelle endomembrane system protein-containing complex cytoplasmic ubiquitin ligase complex ubiquitin ligase complex membrane protein complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum endoplasmic reticulum quality control compartment cytoplasm intracellular membrane-bounded organelle endomembrane system protein-containing complex cytoplasmic ubiquitin ligase complex ubiquitin ligase complex membrane protein complex transferase complex ER ubiquitin ligase complex endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane catalytic complex organelle subcompartment membrane Hrd1p ubiquitin ligase complex organelle membrane intracellular protein-containing complex Derlin-1 retrotranslocation complex membrane-enclosed lumen intracellular organelle lumen endoplasmic reticulum lumen organelle lumen luminal surveillance complex Hrd1p ubiquitin ligase ERAD-L complex
C [auth E], G [auth F]	Endoplasmic reticulum lectin 1	protein-macromolecule adaptor activity molecular adaptor activity	cellular response to stimulus catabolic process response to stimulus proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical response to stress cellular process metabolic process protein metabolic process cellular response to stimulus catabolic process response to stimulus proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical response to stress cellular process metabolic process protein metabolic process macromolecule metabolic process response to endoplasmic reticulum stress negative regulation of protein transport regulation of localization establishment of protein localization regulation of protein localization transport negative regulation of biological process negative regulation of transport regulation of retrograde protein transport, ER to cytosol localization intracellular protein localization negative regulation of protein localization regulation of biological process regulation of transport biological regulation regulation of establishment of protein localization negative regulation of establishment of protein localization regulation of protein transport establishment of localization protein transport macromolecule localization retrograde protein transport, ER to cytosol negative regulation of retrograde protein transport, ER to cytosol cellular response to topologically incorrect protein regulation of cellular process signaling endoplasmic reticulum unfolded protein response cellular response to unfolded protein response to unfolded protein intracellular signal transduction cell communication response to topologically incorrect protein signal transduction	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum endoplasmic reticulum quality control compartment cytoplasm intracellular membrane-bounded organelle endomembrane system protein-containing complex cytoplasmic ubiquitin ligase complex ubiquitin ligase complex membrane protein complex membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle endoplasmic reticulum endoplasmic reticulum quality control compartment cytoplasm intracellular membrane-bounded organelle endomembrane system protein-containing complex cytoplasmic ubiquitin ligase complex ubiquitin ligase complex membrane protein complex transferase complex ER ubiquitin ligase complex endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane catalytic complex organelle subcompartment membrane Hrd1p ubiquitin ligase complex organelle membrane intracellular protein-containing complex membrane-enclosed lumen intracellular organelle lumen endoplasmic reticulum lumen organelle lumen luminal surveillance complex
D [auth G], H	Ala-Asn-Ala	-	-	-
A, E [auth B]	E3 ubiquitin-protein ligase synoviolin	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 protein binding binding protein-folding chaperone binding ubiquitin-specific protease binding enzyme 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 protein binding binding protein-folding chaperone binding ubiquitin-specific protease binding enzyme binding protease binding transcription factor binding DNA-binding transcription factor binding ATPase binding	regulation of protein stability biological regulation regulation of biological quality protein stabilization cellular response to stimulus catabolic process response to stimulus proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical regulation of protein stability biological regulation regulation of biological quality protein stabilization cellular response to stimulus catabolic process response to stimulus proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress response to chemical response to stress cellular process metabolic process protein metabolic process macromolecule metabolic process response to endoplasmic reticulum stress regulation of cellular process signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of cellular response to stress negative regulation of biological process regulation of response to endoplasmic reticulum stress negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway regulation of signal transduction regulation of programmed cell death intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of intrinsic apoptotic signaling pathway intracellular signal transduction negative regulation of cell communication cell communication regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway regulation of intracellular signal transduction regulation of response to stress negative regulation of apoptotic signaling pathway negative regulation of cellular process signal transduction intrinsic apoptotic signaling pathway negative regulation of response to endoplasmic reticulum stress regulation of biological process regulation of signaling negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process cell death negative regulation of signal transduction apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway negative regulation of apoptotic process regulation of response to stimulus regulation of cell communication apoptotic process programmed cell death regulation of apoptotic signaling pathway 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 developmental process multicellular organismal process cellular developmental process immature B cell differentiation hemopoiesis B cell activation cell activation cell development mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation cell differentiation immune system process anatomical structure development leukocyte differentiation proteasome-mediated ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process establishment of protein localization transport localization intracellular protein localization establishment of localization protein transport retrograde protein transport, ER to cytosol macromolecule localization protein alpha-1,2-demannosylation carbohydrate derivative metabolic process glycoprotein metabolic process protein deglycosylation protein demannosylation endoplasmic reticulum mannose trimming protein polyubiquitination protein K48-linked ubiquitination	membrane-bounded organelle protein-containing complex cytoplasmic ubiquitin ligase complex intracellular anatomical structure ubiquitin ligase complex membrane protein complex transferase complex endomembrane system ER ubiquitin ligase complex endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum protein-containing complex membrane-bounded organelle protein-containing complex cytoplasmic ubiquitin ligase complex intracellular anatomical structure ubiquitin ligase complex membrane protein complex transferase complex endomembrane system ER ubiquitin ligase complex endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane catalytic complex organelle subcompartment membrane intracellular membrane-bounded organelle organelle endoplasmic reticulum cytoplasm Hrd1p ubiquitin ligase complex organelle membrane intracellular protein-containing complex Derlin-1 retrotranslocation complex membrane-enclosed lumen intracellular organelle lumen endoplasmic reticulum lumen organelle lumen luminal surveillance complex cell periphery plasma membrane smooth endoplasmic reticulum nucleus nucleoplasm nuclear lumen Hrd1p ubiquitin ligase ERAD-L complex endoplasmic reticulum quality control compartment

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth D], F [auth C]	IPR013806	Kringle-like fold	Homologous Superfamily
B [auth D], F [auth C]	IPR036943	Fibronectin type II domain superfamily	Homologous Superfamily
B [auth D], F [auth C]	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
B [auth D], F [auth C]	IPR050767	Sel1/AlgK	Family
B [auth D], F [auth C]	IPR006597	Sel1-like repeat	Repeat
B [auth D], F [auth C]	IPR000562	Fibronectin type II domain	Domain
C [auth E], G [auth F]	IPR012913	Protein OS9-like domain	Domain
C [auth E], G [auth F]	IPR009011	Mannose-6-phosphate receptor binding domain superfamily	Homologous Superfamily
C [auth E], G [auth F]	IPR044865	MRH domain	Domain
C [auth E], G [auth F]	IPR045149	Protein OS-9-like	Family
A, E [auth B]	IPR058051	Synoviolin-like, RING finger	Domain
A, E [auth B]	IPR057992	E3 ubiquitin-protein ligase synoviolin-like, TPR repeats	Domain
A, E [auth B]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, E [auth B]	IPR050731	HRD1 family E3 ubiquitin-protein ligases	Family
A, E [auth B]	IPR001841	Zinc finger, RING-type	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth D], F [auth C]	: Q9UBV2	astrocytic tumor large cell medulloblastoma malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous carcinoma periodontitis atypical teratoid rhabdoid tumor malignant ependymoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis interstitial cystitis malignant mesothelioma oligodendroglioma astrocytic tumor large cell medulloblastoma malignant pancreatic neoplasm osteosarcoma pancreatic intraductal papillary-mucinous carcinoma periodontitis atypical teratoid rhabdoid tumor malignant ependymoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis interstitial cystitis malignant mesothelioma oligodendroglioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia rheumatoid arthritis
C [auth E], G [auth F]	: Q96DZ1	cholestasis anorexia nervosa drug-induced liver injury Hepatitis, Drug-Induced malignant pancreatic neoplasm Pick disease endogenous depression ovarian cancer exocrine pancreatic carcinoma large cell medulloblastoma pancreatic intraductal papillary-mucinous neoplasm
A, E [auth B]	: Q86TM6	acne malignant ependymoma ovarian cancer breast carcinoma metabolic syndrome X pancreatic ductal adenocarcinoma lung adenocarcinoma oligodendroglioma Sjogren syndrome

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B [auth D], C [auth E], E [auth B], F [auth C] A, B [auth D], C [auth E], E [auth B], F [auth C], G [auth F]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B [auth D], C [auth E], E [auth B], F [auth C] A, B [auth D], C [auth E], E [auth B], F [auth C], G [auth F]	MemProtMD	Annotated as membrane protein by MemProtMD