4I9X | pdb_00004i9x

Crystal structure of human cytomegalovirus glycoprotein UL141 targeting the death receptor TRAIL-R2

External Resource: Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d4i9xd1	Small proteins	TNF receptor-like	TNF receptor-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d4i9xc1	Small proteins	TNF receptor-like	TNF receptor-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	TNF receptor-like	8038905	3000971	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	TNF receptor-like	8038907	3000971	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	TNF receptor-like	8038908	3000971	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TNF receptor-like	8038907	3000971	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TNF receptor-like	8038905	3000971	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TNF receptor-like	8038908	3000971	SCOP2B (2022-06-29)
B	SCOP2 Family	V set domains-like	8046106	4007530	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Immunoglobulin (Ig) domain-like	8092888	3000071	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8092888	3000071	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)
D	Beta-lactamase2	e4i9xD1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NagB/RpiA/CoA transferase-like	F: Beta-lactamase2	ECOD (v294.1)
C	Hfx_Cass5	e4i9xC1	A: a/b three-layered sandwiches	X: Transmembrane heme-binding four-helical bundle	H: Anticodon-binding domain of Class II aaRS	T: Anticodon-binding domain of Class II aaRS	F: Hfx_Cass5	ECOD (v294.1)
B	V-set	e4i9xB2	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: V-set	ECOD (v294.1)
A	Alba	e4i9xA1	A: a/b three-layered sandwiches	X: Thioredoxin-like	H: ClpP/crotonase	T: ClpP/crotonase	F: Alba	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)
C	2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)
B	2.60.40.3790	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
A	2.60.40.3790	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF00020	TNFR/NGFR cysteine-rich region (TNFR_c6)	TNFR/NGFR cysteine-rich region		Domain
A, B	PF16758	Herpes-like virus membrane glycoprotein UL141 (UL141)	Herpes-like virus membrane glycoprotein UL141	UL141 is a family of glycoproteins from herpesvirus species. At it N-terminus it carries an Ig-like beta-sandwich domain, which binds to the cysteine-rich region of TRAIL-R2, a family of tumour necrosis factor receptor proteins. UL141 is both necessa ...	UL141 is a family of glycoproteins from herpesvirus species. At it N-terminus it carries an Ig-like beta-sandwich domain, which binds to the cysteine-rich region of TRAIL-R2, a family of tumour necrosis factor receptor proteins. UL141 is both necessary and sufficient to retain TRAIL receptors in the ER, thereby preventing their cell surface expression and it is also necessary and sufficient to inhibit cell surface expression of CD155 [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	Tumor necrosis factor receptor superfamily member 10B	molecular transducer activity signaling receptor activity protein binding binding TRAIL binding TRAIL receptor activity transmembrane signaling receptor activity death receptor activity	response to tumor cell response to stimulus defense response response to stress defense response to tumor cell response to biotic stimulus cellular response to stimulus regulation of cellular process positive regulation of phosphorylation regulation of catalytic activity regulation of transferase activity positive regulation of phosphate metabolic process intracellular signal transduction regulation of primary metabolic process response to tumor cell response to stimulus defense response response to stress defense response to tumor cell response to biotic stimulus cellular response to stimulus regulation of cellular process positive regulation of phosphorylation regulation of catalytic activity regulation of transferase activity positive regulation of phosphate metabolic process intracellular signal transduction regulation of primary metabolic process cell communication positive regulation of metabolic process phosphate-containing compound metabolic process intracellular signaling cassette positive regulation of macromolecule metabolic process signal transduction phosphorus metabolic process protein modification process positive regulation of protein phosphorylation activation of NF-kappaB-inducing kinase activity regulation of biological process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation non-canonical NF-kappaB signal transduction regulation of protein metabolic process primary metabolic process regulation of molecular function positive regulation of kinase activity regulation of kinase activity activation of protein kinase activity macromolecule modification regulation of phosphorus metabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation signaling positive regulation of protein metabolic process positive regulation of biological process positive regulation of molecular function positive regulation of protein modification process protein metabolic process positive regulation of protein kinase activity positive regulation of cellular process biological regulation positive regulation of catalytic activity regulation of protein kinase activity regulation of macromolecule metabolic process regulation of phosphorylation cellular process positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction regulation of signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction regulation of signaling 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 cell surface receptor signaling pathway response to mechanical stimulus response to external stimulus response to abiotic stimulus cellular response to mechanical stimulus cellular response to abiotic stimulus cellular response to external stimulus cellular response to environmental stimulus intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress cell death apoptotic signaling pathway cellular response to stress apoptotic process intrinsic apoptotic signaling pathway programmed cell death response to endoplasmic reticulum stress positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death positive regulation of apoptotic process extrinsic apoptotic signaling pathway via death domain receptors extrinsic apoptotic signaling pathway TRAIL-activated apoptotic signaling pathway	cell surface cellular anatomical structure cell periphery plasma membrane membrane
A, B	Protein UL141	-	symbiont-mediated perturbation of host defense response symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host natural killer cell mediated immune response symbiont-mediated perturbation of host immune response symbiont-mediated perturbation of host innate immune response modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum host cell membrane other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell endomembrane system host intracellular region host cell endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR011029	Death-like domain superfamily	Homologous Superfamily
C, D	IPR020465	Tumour necrosis factor receptor 10	Family
C, D	IPR052491	Tumor necrosis factor receptor superfamily member 10	Family
C, D	IPR000488	Death domain	Domain
C, D	IPR001368	TNFR/NGFR cysteine-rich region	Domain
C, D	IPR034029	Tumour necrosis factor receptor 10A/B, death domain	Domain
C, D	IPR034024	Tumor necrosis factor receptor 10, N-terminal	Domain
A, B	IPR038504	UL141-like superfamily	Homologous Superfamily
A, B	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, B	IPR031918	Herpesvirus membrane glycoprotein UL141	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D	Pharos: O14763	head and neck squamous cell carcinoma Liver Neoplasms, Experimental malignant colon neoplasm malignant mesothelioma myopathy osteosarcoma pancreatic intraductal papillary-mucinous neoplasm acute myeloid leukemia pituitary cancer B-cell chronic lymphocytic leukemia renal cell carcinoma cutaneous lupus erythematosus squamous cell carcinoma of lip subependymal giant cell astrocytoma juvenile dermatomyositis head and neck squamous cell carcinoma Liver Neoplasms, Experimental malignant colon neoplasm malignant mesothelioma myopathy osteosarcoma pancreatic intraductal papillary-mucinous neoplasm acute myeloid leukemia pituitary cancer B-cell chronic lymphocytic leukemia renal cell carcinoma cutaneous lupus erythematosus squamous cell carcinoma of lip subependymal giant cell astrocytoma juvenile dermatomyositis lung cancer malignant ependymoma oligodendroglioma ovarian cancer pancreatic neoplasm astrocytic tumor polycystic ovary syndrome Barrett esophagus skin basal cell carcinoma dermatomyositis gastric carcinoma ulcerative colitis laryngeal squamous cell carcinoma lung carcinoma malignant glioma malignant pancreatic neoplasm oral cavity squamous cell carcinoma pancreatic ductal adenocarcinoma pilocytic astrocytoma atypical teratoid rhabdoid tumor primitive neuroectodermal tumor cancer esophageal adenocarcinoma glioblastoma

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.