2B8Z

Crystal structure of the interleukin-4 variant R85A

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 Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2b8za_	All alpha proteins	4-helical cytokines	4-helical cytokines	Short-chain cytokines	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)
A	SCOP2B Superfamily	4-helical cytokines	8037758	3001717	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	IL4	e2b8zA1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: 4-helical cytokines (From Topology)	T: 4-helical cytokines	F: IL4	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.1250.10	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00727	Interleukin 4 (IL4)	Interleukin 4	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Interleukin-4	protein binding binding signaling receptor binding cytokine receptor binding interleukin-4 receptor binding growth factor receptor binding molecular function activator activity molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity cytokine activity	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains response to stimulus regulation of leukocyte activation regulation of cell activation B cell activation involved in immune response positive regulation of macromolecule biosynthetic process regulation of primary metabolic process multicellular organism development positive regulation of immune response organic substance biosynthetic process regulation of immune system process positive regulation of macromolecule metabolic process system development positive regulation of DNA recombination adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains response to stimulus regulation of leukocyte activation regulation of cell activation B cell activation involved in immune response positive regulation of macromolecule biosynthetic process regulation of primary metabolic process multicellular organism development positive regulation of immune response organic substance biosynthetic process regulation of immune system process positive regulation of macromolecule metabolic process system development positive regulation of DNA recombination positive regulation of immunoglobulin mediated immune response immune response cellular metabolic process DNA recombination primary metabolic process DNA metabolic process immune effector process regulation of gene expression biosynthetic process positive regulation of DNA metabolic process regulation of response to stimulus B cell mediated immunity positive regulation of production of molecular mediator of immune response regulation of macromolecule biosynthetic process metabolic process regulation of DNA metabolic process immunoglobulin production regulation of developmental process positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains somatic cell DNA recombination positive regulation of cellular metabolic process somatic diversification of immunoglobulins involved in immune response positive regulation of lymphocyte activation somatic recombination of immunoglobulin gene segments positive regulation of biosynthetic process regulation of immunoglobulin mediated immune response leukocyte activation involved in immune response regulation of B cell activation positive regulation of isotype switching positive regulation of immune effector process positive regulation of cellular process production of molecular mediator of immune response positive regulation of immunoglobulin production regulation of isotype switching cell activation regulation of macromolecule metabolic process macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process positive regulation of gene expression immune system process somatic diversification of immune receptors via germline recombination within a single locus cellular process positive regulation of cellular biosynthetic process regulation of lymphocyte activation lymphocyte mediated immunity regulation of immune effector process multicellular organismal process regulation of DNA recombination positive regulation of leukocyte mediated immunity regulation of cellular process cell activation involved in immune response nucleobase-containing compound metabolic process positive regulation of developmental process positive regulation of cell activation positive regulation of metabolic process anatomical structure development positive regulation of leukocyte activation leukocyte mediated immunity somatic diversification of immune receptors regulation of nucleobase-containing compound metabolic process positive regulation of adaptive immune response positive regulation of immune system process somatic recombination of immunoglobulin genes involved in immune response developmental process regulation of biological process positive regulation of nucleobase-containing compound metabolic process regulation of adaptive immune response regulation of cellular metabolic process regulation of B cell mediated immunity somatic diversification of immunoglobulins organic cyclic compound metabolic process regulation of leukocyte mediated immunity regulation of immune response positive regulation of multicellular organismal process regulation of production of molecular mediator of immune response macromolecule metabolic process regulation of metabolic process isotype switching immune system development immunoglobulin production involved in immunoglobulin-mediated immune response positive regulation of lymphocyte mediated immunity cellular biosynthetic process positive regulation of biological process lymphocyte activation positive regulation of B cell mediated immunity leukocyte activation positive regulation of response to stimulus regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains organic substance metabolic process positive regulation of isotype switching to IgG isotypes regulation of multicellular organismal process lymphocyte activation involved in immune response regulation of biosynthetic process B cell activation biological regulation gene expression adaptive immune response immunoglobulin mediated immune response positive regulation of B cell activation regulation of isotype switching to IgG isotypes regulation of lymphocyte mediated immunity regulation of immunoglobulin production isotype switching to IgG isotypes cellular response to growth factor stimulus negative regulation of response to stimulus regulation of cellular response to transforming growth factor beta stimulus cellular response to transforming growth factor beta stimulus response to endogenous stimulus regulation of cellular response to growth factor stimulus negative regulation of biological process negative regulation of cellular response to growth factor stimulus negative regulation of cellular response to transforming growth factor beta stimulus cellular response to endogenous stimulus response to transforming growth factor beta response to growth factor phosphorylation regulation of phosphate metabolic process phosphate-containing compound metabolic process regulation of phosphorylation regulation of phosphorus metabolic process phosphorus metabolic process regulation of tumor necrosis factor production negative regulation of cellular metabolic process negative regulation of tumor necrosis factor production cytokine production regulation of cytokine production negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of metabolic process tumor necrosis factor superfamily cytokine production negative regulation of cytokine production tumor necrosis factor production negative regulation of cellular biosynthetic process negative regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of tumor necrosis factor superfamily cytokine production negative regulation of multicellular organismal process interleukin-13 production positive regulation of interleukin-13 production positive regulation of cytokine production regulation of interleukin-13 production establishment of organelle localization regulation of localization regulated exocytosis regulation of myeloid leukocyte mediated immunity leukocyte degranulation myeloid leukocyte activation myeloid leukocyte mediated immunity vesicle-mediated transport localization positive regulation of leukocyte degranulation positive regulation of regulated secretory pathway establishment of localization in cell positive regulation of mast cell degranulation vacuolar localization mast cell degranulation establishment of localization regulation of secretion exocytosis lysosome localization cellular localization transport positive regulation of secretion by cell positive regulation of exocytosis regulation of mast cell degranulation regulation of regulated secretory pathway secretion by cell regulation of secretion by cell positive regulation of secretion organelle localization mast cell activation regulation of leukocyte degranulation mast cell mediated immunity secretion regulation of transport export from cell regulation of vesicle-mediated transport myeloid cell activation involved in immune response mast cell activation involved in immune response positive regulation of transport regulation of exocytosis regulation of defense response regulation of response to external stimulus negative regulation of inflammatory response defense response response to external stimulus regulation of inflammatory response response to stress negative regulation of response to external stimulus regulation of response to stress regulation of neuroinflammatory response negative regulation of defense response inflammatory response negative regulation of neuroinflammatory response neuroinflammatory response myeloid leukocyte differentiation regulation of leukocyte differentiation cellular developmental process cell development regulation of cell differentiation regulation of cell development regulation of osteoclast differentiation cell differentiation osteoclast differentiation negative regulation of cell differentiation negative regulation of hemopoiesis regulation of multicellular organismal development negative regulation of leukocyte differentiation hemopoiesis regulation of myeloid cell differentiation negative regulation of developmental process regulation of myeloid leukocyte differentiation negative regulation of myeloid cell differentiation negative regulation of osteoclast differentiation negative regulation of myeloid leukocyte differentiation negative regulation of cell development myeloid cell differentiation negative regulation of immune system process regulation of hemopoiesis leukocyte differentiation cellular response to stimulus signal transduction in absence of ligand cell surface receptor signaling pathway signaling cell death extrinsic apoptotic signaling pathway cell communication apoptotic signaling pathway extrinsic apoptotic signaling pathway in absence of ligand signal transduction apoptotic process programmed cell death regulation of complement-dependent cytotoxicity negative regulation of complement-dependent cytotoxicity regulation of cell killing complement-dependent cytotoxicity negative regulation of cell killing cell killing negative regulation of locomotion regulation of cell motility tissue migration negative regulation of epithelial cell migration ameboidal-type cell migration regulation of cell migration cell migration epithelial cell migration cell motility regulation of epithelial cell migration locomotion negative regulation of cell migration epithelium migration regulation of locomotion negative regulation of cell motility import into cell positive regulation of cellular component organization regulation of cellular component organization cellular component organization positive regulation of endocytosis cellular component organization or biogenesis positive regulation of receptor-mediated endocytosis regulation of endocytosis regulation of receptor-mediated endocytosis endocytosis receptor-mediated endocytosis type 2 immune response interleukin-10 production regulation of interleukin-10 production positive regulation of interleukin-10 production regulation of syncytium formation by plasma membrane fusion cell-cell fusion muscle cell differentiation myotube differentiation muscle structure development syncytium formation positive regulation of myoblast fusion myoblast fusion regulation of myoblast fusion positive regulation of syncytium formation by plasma membrane fusion syncytium formation by plasma membrane fusion anatomical structure morphogenesis anatomical structure formation involved in morphogenesis striated muscle cell differentiation regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms response to other organism defense response to symbiont response to biotic stimulus regulation of defense response to virus defense response to virus defense response to other organism positive regulation of defense response to virus by host regulation of defense response to virus by host response to external biotic stimulus response to virus dendritic cell differentiation mononuclear cell differentiation negative regulation of signaling regulation of signal transduction regulation of programmed cell death negative regulation of cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway regulation of signaling negative regulation of programmed cell death regulation of apoptotic process negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic process regulation of cell communication regulation of apoptotic signaling pathway macrophage activation nucleotide biosynthetic process organonitrogen compound 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 nucleotide metabolic process small molecule metabolic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process positive regulation of phosphorus metabolic process nucleotide metabolic process regulation of purine nucleotide metabolic process ribonucleoside triphosphate biosynthetic process positive regulation of ATP metabolic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic 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 purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process purine-containing compound biosynthetic process ribonucleoside triphosphate metabolic process purine nucleoside triphosphate metabolic process carbohydrate derivative biosynthetic process regulation of purine nucleotide biosynthetic process organonitrogen compound metabolic process nucleoside triphosphate biosynthetic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process positive regulation of purine nucleotide metabolic process positive regulation of ATP biosynthetic process regulation of ATP biosynthetic process organophosphate metabolic process positive regulation of small molecule metabolic process positive regulation of cell population proliferation positive regulation of B cell proliferation leukocyte proliferation regulation of B cell proliferation lymphocyte proliferation positive regulation of mononuclear cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation positive regulation of lymphocyte proliferation B cell proliferation regulation of cell population proliferation mononuclear cell proliferation positive regulation of leukocyte proliferation regulation of mononuclear cell proliferation negative regulation of RNA biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II regulation of DNA-templated transcription negative regulation of RNA metabolic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA biosynthetic process regulation of macrophage activation negative regulation of cell activation negative regulation of leukocyte activation negative regulation of macrophage activation T cell activation positive regulation of T cell activation positive regulation of T cell proliferation regulation of leukocyte cell-cell adhesion positive regulation of leukocyte cell-cell adhesion leukocyte cell-cell adhesion positive regulation of cell-cell adhesion cell adhesion cell-cell adhesion regulation of cell-cell adhesion T cell proliferation positive regulation of cell adhesion regulation of cell adhesion regulation of T cell activation regulation of T cell proliferation positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of RNA biosynthetic process leukocyte activation involved in inflammatory response microglial cell activation glial cell activation T cell mediated immunity T-helper 2 cell cytokine production T cell cytokine production regulation of T-helper 2 cell cytokine production regulation of type 2 immune response positive regulation of T cell cytokine production regulation of T cell mediated immunity regulation of cytokine production involved in immune response positive regulation of T-helper 2 cell cytokine production regulation of T cell cytokine production CD4-positive, alpha-beta T cell cytokine production cytokine production involved in immune response positive regulation of type 2 immune response positive regulation of T cell mediated immunity positive regulation of cytokine production involved in immune response B cell costimulation lymphocyte costimulation lymphocyte differentiation B cell differentiation myeloid dendritic cell activation myeloid dendritic cell differentiation positive regulation of amyloid-beta clearance amyloid-beta clearance regulation of amyloid-beta clearance regulation of isotype switching to IgE isotypes positive regulation of isotype switching to IgE isotypes isotype switching to IgE isotypes organic hydroxy compound metabolic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process secondary alcohol metabolic process lipid metabolic process chronic inflammatory response regulation of chronic inflammatory response negative regulation of chronic inflammatory response response to organic substance interleukin-4-mediated signaling pathway response to cytokine cytokine-mediated signaling pathway response to interleukin-4 cellular response to chemical stimulus response to chemical cellular response to cytokine stimulus cellular response to organic substance cellular response to interleukin-4 homeostatic process adaptive thermogenesis multicellular organismal-level homeostasis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis positive regulation of locomotion positive regulation of chemotaxis positive regulation of cell migration eosinophil migration taxis eosinophil chemotaxis chemotaxis regulation of leukocyte chemotaxis regulation of eosinophil chemotaxis regulation of leukocyte migration positive regulation of leukocyte chemotaxis granulocyte migration leukocyte migration positive regulation of granulocyte chemotaxis regulation of granulocyte chemotaxis positive regulation of response to external stimulus positive regulation of eosinophil chemotaxis positive regulation of cell motility myeloid leukocyte migration cell chemotaxis positive regulation of eosinophil migration positive regulation of leukocyte migration regulation of chemotaxis regulation of eosinophil migration granulocyte chemotaxis leukocyte chemotaxis catabolic process macroautophagy autophagy regulation of autophagy cellular catabolic process positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of autophagy regulation of catabolic process positive regulation of catabolic process regulation of macroautophagy regulation of cellular catabolic process positive regulation of cellular catabolic process positive regulation of mononuclear cell migration regulation of mononuclear cell migration mononuclear cell migration innate immune response in mucosa innate immune response mucosal immune response organ or tissue specific immune response positive regulation of phosphorylation peptidyl-amino acid modification protein modification process positive regulation of protein phosphorylation tyrosine phosphorylation of STAT protein protein phosphorylation regulation of protein metabolic process macromolecule modification cell surface receptor signaling pathway via STAT regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process peptidyl-tyrosine modification positive regulation of peptidyl-tyrosine phosphorylation positive regulation of protein modification process protein metabolic process regulation of tyrosine phosphorylation of STAT protein regulation of peptidyl-tyrosine phosphorylation positive regulation of tyrosine phosphorylation of STAT protein peptidyl-tyrosine phosphorylation cell surface receptor signaling pathway via JAK-STAT negative regulation of acute inflammatory response regulation of acute inflammatory response acute inflammatory response CD4-positive, alpha-beta T cell differentiation CD4-positive, alpha-beta T cell differentiation involved in immune response alpha-beta T cell differentiation involved in immune response alpha-beta T cell differentiation T cell activation involved in immune response alpha-beta T cell activation involved in immune response CD4-positive, alpha-beta T cell activation alpha-beta T cell activation T-helper 2 cell differentiation T cell differentiation T-helper cell differentiation T cell differentiation involved in immune response regulation of MHC class II biosynthetic process MHC class II biosynthetic process positive regulation of MHC class II biosynthetic process negative regulation of endothelial cell apoptotic process regulation of epithelial cell apoptotic process epithelial cell apoptotic process negative regulation of epithelial cell apoptotic process endothelial cell apoptotic process regulation of endothelial cell apoptotic process positive regulation of cell communication positive regulation of signal transduction regulation of catalytic activity positive regulation of receptor signaling pathway via STAT regulation of transferase activity regulation of receptor signaling pathway via JAK-STAT regulation of molecular function positive regulation of kinase activity regulation of kinase activity activation of protein kinase activity regulation of receptor signaling pathway via STAT positive regulation of receptor signaling pathway via JAK-STAT positive regulation of molecular function positive regulation of protein kinase activity activation of Janus kinase activity positive regulation of transferase activity positive regulation of catalytic activity regulation of protein kinase activity positive regulation of signaling cellular respiration energy derivation by oxidation of organic compounds regulation of generation of precursor metabolites and energy generation of precursor metabolites and energy regulation of cellular respiration positive regulation of cellular respiration regulation of alpha-beta T cell activation negative regulation of cell adhesion negative regulation of T cell differentiation regulation of T-helper cell differentiation negative regulation of immune effector process negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains negative regulation of T cell activation negative regulation of leukocyte cell-cell adhesion negative regulation of cell-cell adhesion T-helper 17 cell differentiation negative regulation of T-helper 17 cell differentiation regulation of T cell differentiation regulation of T-helper 17 cell differentiation negative regulation of T-helper 17 type immune response regulation of CD4-positive, alpha-beta T cell activation negative regulation of alpha-beta T cell activation negative regulation of immune response negative regulation of adaptive immune response negative regulation of CD4-positive, alpha-beta T cell activation negative regulation of lymphocyte differentiation negative regulation of CD4-positive, alpha-beta T cell differentiation regulation of CD4-positive, alpha-beta T cell differentiation regulation of alpha-beta T cell differentiation negative regulation of alpha-beta T cell differentiation negative regulation of lymphocyte activation regulation of lymphocyte differentiation regulation of T-helper 17 type immune response negative regulation of T-helper cell differentiation T-helper 17 type immune response positive regulation of T cell differentiation positive regulation of cell development positive regulation of hemopoiesis positive regulation of cell differentiation positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation	extracellular region extracellular space cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR018096	Interleukin-4/interleukin-13, conserved site	Conserved Site
A	IPR001325	Interleukin-4/interleukin-13	Family
A	IPR002354	Interleukin-4	Family
A	IPR009079	Four-helical cytokine-like, core	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P05112	psoriasis allergic disease pneumonia autoimmune hepatitis adult T-cell leukemia/lymphoma asthma rhinitis cardiomyopathy autoimmune disease Drug Eruptions pleural disease cutaneous leishmaniasis pulmonary fibrosis bagassosis tuberculosis, bovine psoriasis allergic disease pneumonia autoimmune hepatitis adult T-cell leukemia/lymphoma asthma rhinitis cardiomyopathy autoimmune disease Drug Eruptions pleural disease cutaneous leishmaniasis pulmonary fibrosis bagassosis tuberculosis, bovine colitis malignant mesothelioma drug allergy non-alcoholic fatty liver disease allergic contact dermatitis alopecia areata pneumoconiosis atopic eczema influenza systemic lupus erythematosus kidney disease common cold dermatitis, atopic acute T cell leukemia drug-induced liver injury arthritic joint disease autism Hodgkins lymphoma pustulosis palmaris et plantaris inborn carbohydrate metabolic disorder schizophrenia interstitial lung disease tuberculosis leishmaniasis liver disease lymphatic system disease obesity disorder allergic rhinitis pneumonitis hypereosinophilic syndrome idiopathic interstitial pneumonia inflammatory bowel disease dermatitis paranoid schizophrenia helminthiasis HIV infectious disease cancer

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.