1Y6M | pdb_00001y6m

Crystal structure of Epstein-Barr virus IL-10 complexed with the soluble IL-10R1 chain

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
A [auth L]	d1y6ml_	All alpha proteins	4-helical cytokines	4-helical cytokines	Interferons/interleukin-10 (IL-10)	Interleukin-10 (cytokine synthesis inhibitory factor, CSIF)	Epstein-Barr virus (human gammaherpesvirus 4 ) [TaxId: 10376 ],	SCOPe (2.08)
B [auth R]	d1y6mr1	All beta proteins	Immunoglobulin-like beta-sandwich	Fibronectin type III	Fibronectin type III	Interleukin-10 receptor 1, IL-10R1	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 [auth L]	SCOP2B Superfamily	4-helical cytokines	8037115	3001717	SCOP2B (2022-06-29)
B [auth R]	SCOP2B Superfamily	Fibronectin type III	8055535	3002063	SCOP2B (2022-06-29)
B [auth R]	SCOP2B Superfamily	Fibronectin type III	8055147	3002063	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 [auth L]		e1y6mL1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Flavivirus capsid protein C	T: Flavivirus capsid protein C	F:	ECOD (v294.1)
B [auth R]	Copper-bind	e1y6mR1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: Copper-bind	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth L]	1.20.1250.10	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)
B [auth R]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L]	Viral interleukin-10 homolog	molecular function activator activity molecular function regulator activity cytokine activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity	symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated perturbation of host process symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated activation of host signal transduction pathway symbiont-mediated activation of host anti-inflammatory cytokine signaling response to stimulus immune response immune system process symbiont-mediated suppression of host signal transduction pathway symbiont-mediated perturbation of host cellular process biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated perturbation of host process symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated activation of host signal transduction pathway symbiont-mediated activation of host anti-inflammatory cytokine signaling response to stimulus immune response immune system process symbiont-mediated perturbation of host receptor-mediated signal transduction symbiont-mediated suppression of host pro-inflammatory cytokine signaling	cellular anatomical structure extracellular region extracellular space
B [auth R]	Interleukin-10 receptor alpha chain	molecular transducer activity signaling receptor activity transmembrane signaling receptor activity cytokine receptor activity immune receptor activity interleukin-10 receptor activity protein binding binding interleukin-10 binding growth factor binding cytokine binding	cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus signal transduction interleukin-10-mediated signaling pathway positive regulation of cell communication cell surface receptor signaling pathway via STAT positive regulation of signal transduction positive regulation of biological process positive regulation of receptor signaling pathway via STAT regulation of signal transduction positive regulation of receptor signaling pathway via JAK-STAT positive regulation of response to stimulus regulation of receptor signaling pathway via JAK-STAT positive regulation of cellular process regulation of signaling regulation of response to stimulus regulation of cell communication regulation of receptor signaling pathway via STAT cell surface receptor signaling pathway via JAK-STAT positive regulation of signaling negative regulation of catabolic process catabolic process negative regulation of metabolic process autophagy negative regulation of biological process regulation of catabolic process regulation of autophagy negative regulation of autophagy negative regulation of cellular process metabolic process process utilizing autophagic mechanism regulation of metabolic process multicellular organismal process system process epithelial structure maintenance homeostatic process digestive system process intestinal epithelial structure maintenance tissue homeostasis maintenance of gastrointestinal epithelium digestion multicellular organismal-level homeostasis anatomical structure homeostasis regulation of defense response regulation of response to external stimulus negative regulation of inflammatory response defense response negative regulation of response to stimulus response to external stimulus regulation of inflammatory response response to stress negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response regulation of cellular component organization cellular component organization regulation of synapse organization cell junction organization regulation of synapse structure or activity synapse organization cellular component organization or biogenesis regulation of biological quality import into cell ubiquitin-dependent endocytosis establishment of protein localization transport establishment of localization vesicle-mediated transport localization establishment of protein localization to organelle protein transport macromolecule localization protein localization to organelle intracellular protein localization endocytosis biological process involved in interspecies interaction between organisms response to lipid response to other organism response to oxygen-containing compound response to lipopolysaccharide response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin	membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection cell periphery apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane intracellular anatomical structure cytoplasm membrane-bounded organelle cell projection cellular anatomical structure organelle cilium plasma membrane bounded cell projection cell periphery apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane intracellular anatomical structure cytoplasm cytosol nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth L]	IPR009079	Four-helical cytokine-like, core	Homologous Superfamily
A [auth L]	IPR000098	Interleukin-10	Family
A [auth L]	IPR020443	Interleukin-10/19/20/24/26	Family
A [auth L]	IPR020423	Interleukin-10, conserved site	Conserved Site
B [auth R]	IPR050650	Type-II_Cytokine-TF_Rcpt	Unknown
B [auth R]	IPR003961	Fibronectin type III	Domain
B [auth R]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B [auth R]	IPR036116	Fibronectin type III superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth R]	Pharos: Q13651	inflammatory bowel disease 28 ulcerative colitis visceral leishmaniasis schizophrenia adrenal cortex carcinoma chronic kidney disease IgA glomerulonephritis invasive ductal breast carcinoma lymphoplasmacytic lymphoma non-small cell lung carcinoma periodontitis Sjogren syndrome astrocytic tumor cutaneous lupus erythematosus lung cancer inflammatory bowel disease 28 ulcerative colitis visceral leishmaniasis schizophrenia adrenal cortex carcinoma chronic kidney disease IgA glomerulonephritis invasive ductal breast carcinoma lymphoplasmacytic lymphoma non-small cell lung carcinoma periodontitis Sjogren syndrome astrocytic tumor cutaneous lupus erythematosus lung cancer MALT lymphoma osteosarcoma plasma cell myeloma subependymal giant cell astrocytoma B-cell chronic lymphocytic leukemia glioblastoma interstitial cystitis lung carcinoma medulloblastoma ovarian cancer

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.