4QDH | pdb_00004qdh

Crystal Structure of the C-terminal Domain of Mouse TLR9

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Ribosomal_L18_c,Ribosomal_L5e	e4qdhB1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Ribosomal_L18_c,Ribosomal_L5e	ECOD (v294.1)
A	Ribosomal_L18_c,Ribosomal_L5e	e4qdhA1	A: a/b three-layered sandwiches	X: Outer membrane meander beta-barrels	H: Porins	T: Porin	F: Ribosomal_L18_c,Ribosomal_L5e	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF13855	Leucine rich repeat (LRR_8)	Leucine rich repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Variable lymphocyte receptor B, Toll-like receptor 9 chimera	sequence-specific DNA binding DNA binding binding unmethylated CpG binding nucleic acid binding protein binding interleukin-1 receptor binding signaling receptor binding cytokine receptor binding growth factor receptor binding regulatory RNA binding RNA binding siRNA binding molecular transducer activity sequence-specific DNA binding DNA binding binding unmethylated CpG binding nucleic acid binding protein binding interleukin-1 receptor binding signaling receptor binding cytokine receptor binding growth factor receptor binding regulatory RNA binding RNA binding siRNA binding molecular transducer activity pattern recognition receptor activity signaling receptor activity identical protein binding protein homodimerization activity protein dimerization activity	developmental process multicellular organismal process gonad development reproductive system development reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics anatomical structure development reproductive structure development developmental process multicellular organismal process gonad development reproductive system development reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics anatomical structure development reproductive structure development system development cellular response to stimulus positive regulation of response to biotic stimulus regulation of cellular process pattern recognition receptor signaling pathway response to stimulus response to biotic stimulus intracellular signal transduction cell communication immune response-activating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process immune response response to other organism regulation of innate immune response response to external stimulus regulation of response to stimulus defense response to other organism positive regulation of defense response toll-like receptor 9 signaling pathway activation of innate immune response regulation of immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process positive regulation of response to stimulus endolysosomal toll-like receptor signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of response to stress response to stress innate immune response response to external biotic stimulus positive regulation of innate immune response defense response biological regulation defense response to symbiont immune system process cellular process toll-like receptor signaling pathway MyD88-dependent toll-like receptor signaling pathway positive regulation of cell communication regulation of toll-like receptor 9 signaling pathway positive regulation of signal transduction regulation of signal transduction positive regulation of pattern recognition receptor signaling pathway positive regulation of intracellular signal transduction regulation of pattern recognition receptor signaling pathway regulation of cytoplasmic pattern recognition receptor signaling pathway regulation of intracellular signal transduction positive regulation of toll-like receptor 9 signaling pathway positive regulation of cellular process regulation of signaling regulation of cell communication positive regulation of signaling regulation of inflammatory response positive regulation of inflammatory response inflammatory response regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process cellular response to metal ion cellular response to chemical stimulus response to metal ion response to chemical negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process negative regulation of cell communication intracellular signaling cassette negative regulation of cellular process negative regulation of response to stimulus regulation of MAPK cascade negative regulation of signal transduction negative regulation of ERK1 and ERK2 cascade MAPK cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade negative regulation of MAPK cascade positive regulation of interleukin-8 production cytokine production regulation of cytokine production regulation of multicellular organismal process interleukin-8 production positive regulation of multicellular organismal process positive regulation of cytokine production regulation of interleukin-8 production positive regulation of JNK cascade JNK cascade positive regulation of MAPK cascade regulation of JNK cascade regulation of chemokine production chemokine production positive regulation of chemokine production regulation of immune effector process immunoglobulin production positive regulation of immune effector process positive regulation of immunoglobulin production production of molecular mediator of immune response immune effector process regulation of immunoglobulin production positive regulation of production of molecular mediator of immune response regulation of production of molecular mediator of immune response interleukin-10 production regulation of interleukin-10 production positive regulation of interleukin-10 production cellular developmental process regulation of developmental process positive regulation of intestinal epithelial cell development cell development regulation of cell differentiation epithelial cell differentiation regulation of epithelial cell differentiation regulation of cell development positive regulation of developmental process columnar/cuboidal epithelial cell development positive regulation of cell differentiation cell differentiation regulation of intestinal epithelial cell development epithelium development regulation of multicellular organismal development digestive system development intestinal epithelial cell differentiation tube development intestinal epithelial cell development positive regulation of cell development tissue development digestive tract development epithelial cell development columnar/cuboidal epithelial cell differentiation defense response to Gram-negative bacterium defense response to bacterium response to bacterium regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte activation positive regulation of lymphocyte activation positive regulation of cell activation regulation of B cell activation positive regulation of leukocyte activation B cell activation cell activation positive regulation of B cell activation regulation of lymphocyte activation 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 defense response to virus response to virus positive regulation of type I interferon production type I interferon production regulation of type I interferon production positive regulation of DNA-templated transcription RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription positive regulation of autophagy catabolic process autophagy regulation of catabolic process regulation of autophagy positive regulation of catabolic process process utilizing autophagic mechanism myeloid leukocyte activation macrophage activation leukocyte activation involved in inflammatory response microglial cell activation glial cell activation neuroinflammatory response interferon-alpha production regulation of interferon-alpha production positive regulation of interferon-alpha production maintenance of gastrointestinal epithelium system process digestion multicellular organismal-level homeostasis epithelial structure maintenance homeostatic process digestive system process anatomical structure homeostasis tissue homeostasis positive regulation of canonical NF-kappaB signal transduction canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction interleukin-6 production positive regulation of interleukin-6 production regulation of interleukin-6 production response to lipid 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 cellular response to biotic stimulus cellular response to lipid response to molecule of bacterial origin regulation of interleukin-12 production interleukin-12 production positive regulation of interleukin-12 production regulation of interferon-beta production interferon-beta production positive regulation of interferon-beta production regulation of leukocyte differentiation mononuclear cell differentiation lymphocyte differentiation regulation of B cell differentiation B cell differentiation regulation of lymphocyte differentiation hemopoiesis regulation of hemopoiesis leukocyte differentiation dendritic cell cytokine production regulation of dendritic cell cytokine production leukocyte mediated immunity cytokine production involved in immune response regulation of cytokine production involved in immune response regulation of leukocyte mediated immunity granulocyte macrophage colony-stimulating factor production positive regulation of protein metabolic process positive regulation of granulocyte macrophage colony-stimulating factor production protein metabolic process regulation of granulocyte macrophage colony-stimulating factor production regulation of protein metabolic process cellular response to nitrogen compound cellular response to chloroquine response to chloroquine response to nitrogen compound positive regulation of interleukin-18 production regulation of interleukin-18 production interleukin-18 production regulation of tumor necrosis factor production positive regulation of tumor necrosis factor superfamily cytokine production tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production regulation of type II interferon production type II interferon production positive regulation of type II interferon production detection of external biotic stimulus detection of molecule of bacterial origin detection of biotic stimulus detection of stimulus detection of chemical stimulus	cell periphery cellular anatomical structure plasma membrane membrane basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane intracellular anatomical structure cytoplasm apical part of cell apical plasma membrane membrane-bounded organelle endosome cell periphery cellular anatomical structure plasma membrane membrane basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane intracellular anatomical structure cytoplasm apical part of cell apical plasma membrane membrane-bounded organelle endosome intracellular vesicle lytic vacuole vacuole intracellular membrane-bounded organelle endomembrane system intracellular organelle endolysosome cytoplasmic vesicle organelle vesicle lysosome phagocytic vesicle endocytic vesicle early phagosome organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane endosome membrane early endosome early endosome membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B	IPR000372	Leucine-rich repeat N-terminal domain	Domain
A, B	IPR024592	Variable_lymphocyte_rcpt_C	Unknown
A, B	IPR001611	Leucine-rich repeat	Repeat
A, B	IPR050541	Leucine-rich repeat and transmembrane domain-containing protein	Family
A, B	IPR003591	Leucine-rich repeat, typical subtype	Repeat
A, B	IPR001611	Leucine-rich repeat	Repeat
A, B	IPR035897	Toll/interleukin-1 receptor homology (TIR) domain superfamily	Homologous Superfamily
A, B	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain	Domain
A, B	IPR003591	Leucine-rich repeat, typical subtype	Repeat
A, B	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B	IPR041283	Leucine-rich repeat unit	Repeat

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.