9LFL | pdb_00009lfl

Cryo-EM structure of linker-extended biparatopic antibody BA1-GP4 in complex with TNFR2

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)
E	AAA_lid_3	e9lflE1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA_lid_3	ECOD (v295.2)
D	Arm, HEAT_2, ARM_PUB, SIL1_FES1_HPBP1_C	e9lflD1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: Hypothetical protein YqbG-like	F: Arm, HEAT_2, ARM_PUB, SIL1_FES1_HPBP1_C	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00020	TNFR/NGFR cysteine-rich region (TNFR_c6)	TNFR/NGFR cysteine-rich region		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E	TR96 light chain	-	-	-
D	TR96 heavy chain	-	-	-
C	TR92 light chain	-	-	-
B	TR92 heavy chain	-	-	-
A	Tumor necrosis factor receptor superfamily member 1B	molecular transducer activity transmembrane signaling receptor activity signaling receptor activity tumor necrosis factor receptor activity death receptor activity protein binding binding cytokine binding tumor necrosis factor binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding	multicellular organismal process regulation of immune effector process regulation of cellular process response to stimulus cytokine production regulation of cytokine production regulation of immune system process regulation of multicellular organismal process cytokine production involved in immune response production of molecular mediator of immune response regulation of biosynthetic process regulation of biological process regulation of cytokine production involved in immune response immune response multicellular organismal process regulation of immune effector process regulation of cellular process response to stimulus cytokine production regulation of cytokine production regulation of immune system process regulation of multicellular organismal process cytokine production involved in immune response production of molecular mediator of immune response regulation of biosynthetic process regulation of biological process regulation of cytokine production involved in immune response immune response biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process immune effector process regulation of gene expression biosynthetic process immune system process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of production of molecular mediator of immune response regulation of metabolic process developmental process regulation of multicellular organismal development regulation of developmental process regulation of myelination nervous system development regulation of nervous system development myelination multicellular organism development axon ensheathment ensheathment of neurons anatomical structure development animal gross anatomical part developmental process system development regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte proliferation leukocyte activation T cell activation lymphocyte proliferation T cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation cell activation regulation of T cell activation regulation of T cell proliferation regulation of cell population proliferation mononuclear cell proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation negative regulation of extracellular matrix organization regulation of localization regulation of cellular component organization transport negative regulation of biological process extracellular matrix organization negative regulation of transport cellular component organization localization negative regulation of secretion regulation of secretion by cell secretion by cell negative regulation of cellular process negative regulation of secretion by cell cellular component organization or biogenesis regulation of extracellular matrix constituent secretion extracellular structure organization negative regulation of cellular component organization regulation of transport secretion export from cell establishment of localization regulation of secretion negative regulation of extracellular matrix constituent secretion extracellular matrix constituent secretion regulation of extracellular matrix organization external encapsulating structure organization regulation of defense response regulation of response to external stimulus defense response regulation of inflammatory response response to external stimulus regulation of response to stimulus response to stress regulation of response to stress regulation of neuroinflammatory response inflammatory response neuroinflammatory response negative regulation of inflammatory response negative regulation of response to stimulus negative regulation of response to external stimulus negative regulation of defense response negative regulation of neuroinflammatory response cellular response to stimulus biological process involved in interspecies interaction between organisms response to lipid response to other organism cellular response to lipopolysaccharide response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound response to biotic stimulus cellular response to biotic stimulus cellular response to chemical stimulus response to chemical response to bacterium cellular response to lipid response to external biotic stimulus response to molecule of bacterial origin cell surface receptor signaling pathway signaling cell death extrinsic apoptotic signaling pathway cell communication apoptotic signaling pathway signal transduction apoptotic process programmed cell death heart development heart valve development animal organ development circulatory system development pulmonary valve development semi-lunar valve development system process regulation of system process positive regulation of biological process positive regulation of myelination positive regulation of nervous system process positive regulation of cellular process nervous system process regulation of nervous system process positive regulation of multicellular organismal 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 positive regulation of metabolic process phosphate-containing compound metabolic process intracellular signaling cassette positive regulation of macromolecule metabolic process protein modification process positive regulation of protein phosphorylation activation of NF-kappaB-inducing kinase activity protein phosphorylation 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 protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of molecular function positive regulation of protein modification process protein metabolic process positive regulation of protein kinase activity positive regulation of catalytic activity regulation of protein kinase activity regulation of phosphorylation cellular response to stress DNA damage response intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway response to cytokine cytokine-mediated signaling pathway response to peptide cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus response to tumor necrosis factor adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity T cell mediated immunity T cell cytokine production regulation of T cell cytokine production regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains leukocyte mediated immunity regulation of T cell mediated immunity regulation of adaptive immune response adaptive immune response regulation of leukocyte mediated immunity regulation of lymphocyte mediated immunity regulation of immune response glial cell-neuron signaling cell-cell signaling apoptotic process involved in morphogenesis regulation of programmed cell death apoptotic process involved in development positive regulation of developmental process positive regulation of apoptotic process involved in morphogenesis positive regulation of programmed cell death positive regulation of apoptotic process involved in development regulation of apoptotic process regulation of apoptotic process involved in development positive regulation of apoptotic process anatomical structure morphogenesis aortic valve development positive regulation of nervous system development cellular developmental process cell development regulation of neurogenesis regulation of cell differentiation regulation of gliogenesis positive regulation of gliogenesis regulation of cell development neurogenesis gliogenesis positive regulation of cell differentiation cell differentiation positive regulation of neurogenesis positive regulation of oligodendrocyte differentiation positive regulation of cell development regulation of glial cell differentiation positive regulation of glial cell differentiation central nervous system development oligodendrocyte differentiation glial cell differentiation regulation of oligodendrocyte differentiation muscle hypertrophy regulation of muscle adaptation negative regulation of muscle hypertrophy striated muscle hypertrophy regulation of muscle system process muscle system process regulation of muscle hypertrophy regulation of cardiac muscle hypertrophy muscle adaptation cardiac muscle hypertrophy negative regulation of multicellular organismal process negative regulation of cardiac muscle hypertrophy catabolic process positive regulation of membrane protein ectodomain proteolysis macromolecule catabolic process regulation of proteolysis proteolysis membrane protein proteolysis membrane protein ectodomain proteolysis regulation of membrane protein ectodomain proteolysis protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process positive regulation of proteolysis regulation of protein catabolic process	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane specific granule cell periphery plasma membrane membrane microdomain membrane raft extracellular region tumor necrosis factor receptor superfamily complex protein-containing complex signaling receptor complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR051670	TNF and chemokine receptor-like	Family
A	IPR033996	Tumor necrosis factor receptor 1B, N-terminal	Domain
A	IPR020411	Tumour necrosis factor receptor 1B	Family
A	IPR001368	TNFR/NGFR cysteine-rich region	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	: P20333	mycosis fungoides non-alcoholic fatty liver disease allergic disease pneumonia Sezary syndrome type 2 diabetes mellitus cirrhosis of liver narcolepsy obesity disorder brain ischemia Hypoalbuminemia lung carcinoma osteosarcoma depressive disorder gastric carcinoma mycosis fungoides non-alcoholic fatty liver disease allergic disease pneumonia Sezary syndrome type 2 diabetes mellitus cirrhosis of liver narcolepsy obesity disorder brain ischemia Hypoalbuminemia lung carcinoma osteosarcoma depressive disorder gastric carcinoma interstitial cystitis lung adenocarcinoma maturity-onset diabetes of the young allergic rhinitis ovarian cancer bone fracture pneumonitis Sjogren syndrome ulcerative colitis large cell medulloblastoma lung cancer medulloblastoma autism paranoid schizophrenia schizophrenia cutaneous lupus erythematosus subependymal giant cell astrocytoma

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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.