Annotations: 5NAM

NMR structure of TLR4 transmembrane domain (624-670) in DMPG/DHPC bicelles

External Resource: Annotation

Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Toll-like receptor 4	amyloid-beta binding binding peptide binding identical protein binding protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity signaling receptor binding protein heterodimerization activity protein dimerization activity lipid binding lipopolysaccharide binding carbohydrate derivative binding amyloid-beta binding binding peptide binding identical protein binding protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity signaling receptor binding protein heterodimerization activity protein dimerization activity lipid binding lipopolysaccharide binding carbohydrate derivative binding pattern recognition receptor activity lipopolysaccharide immune receptor activity	regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of nitric oxide metabolic process positive regulation of nitric oxide biosynthetic process regulation of metabolic process positive regulation of cellular process multicellular organismal process interleukin-1 production positive regulation of macromolecule biosynthetic process regulation of cytokine production cytokine production positive regulation of interleukin-1 production regulation of multicellular organismal process positive regulation of macromolecule metabolic process regulation of interleukin-1 production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression positive regulation of gene expression positive regulation of multicellular organismal process regulation of macromolecule biosynthetic process macromolecule metabolic process positive regulation of cytokine production regulation of tumor necrosis factor production negative regulation of biological process negative regulation of tumor necrosis factor 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 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 cellular response to stimulus regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus toll-like receptor signaling pathway signaling response to biotic stimulus cell communication positive regulation of response to stimulus immune response-activating signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway positive regulation of immune response regulation of response to stress response to stress innate immune response regulation of immune system process response to external biotic stimulus signal transduction positive regulation of immune system process innate immune response-activating signaling pathway MyD88-dependent toll-like receptor signaling pathway positive regulation of innate immune response defense response immune response response to other organism regulation of innate immune response defense response to symbiont response to external stimulus regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response regulation of inflammatory response positive regulation of inflammatory response inflammatory response cellular response to low-density lipoprotein particle stimulus cellular response to oxidised low-density lipoprotein particle stimulus response to endogenous stimulus response to chemical response to lipoprotein particle cellular response to lipoprotein particle stimulus interleukin-6 production regulation of interleukin-6 production negative regulation of interleukin-6 production import into cell localization transport phagocytosis endocytosis establishment of localization regulation of localization establishment of protein localization regulation of protein localization matrix metallopeptidase secretion positive regulation of matrix metallopeptidase secretion positive regulation of establishment of protein localization positive regulation of secretion by cell protein localization to extracellular region positive regulation of protein transport secretion by cell regulation of secretion by cell positive regulation of secretion intracellular protein localization regulation of matrix metallopeptidase secretion secretion regulation of transport establishment of protein localization to extracellular region regulation of establishment of protein localization export from cell regulation of protein transport protein secretion positive regulation of protein secretion regulation of protein secretion regulation of secretion positive regulation of transport protein transport macromolecule localization positive regulation of protein localization interleukin-23 production regulation of interleukin-23 production negative regulation of interleukin-23 production negative regulation of signaling negative regulation of intracellular signal transduction regulation of signal transduction intracellular signal transduction negative regulation of cell communication regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling negative regulation of response to stimulus regulation of MAPK cascade negative regulation of signal transduction negative regulation of ERK1 and ERK2 cascade MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade negative regulation of MAPK cascade myeloid leukocyte differentiation regulation of leukocyte differentiation cellular developmental process regulation of developmental process cell development regulation of cell differentiation regulation of cell development regulation of osteoclast differentiation multicellular organism development cell differentiation osteoclast differentiation anatomical structure development negative regulation of cell differentiation negative regulation of hemopoiesis developmental process 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 defense response to bacterium response to bacterium regulation of interleukin-1 beta production positive regulation of interleukin-1 beta production interleukin-1 beta production chemokine (C-X-C motif) ligand 2 production regulation of chemokine (C-X-C motif) ligand 2 production positive regulation of chemokine (C-X-C motif) ligand 2 production regulation of chemokine production chemokine production positive regulation of chemokine production positive regulation of interleukin-8 production interleukin-8 production regulation of interleukin-8 production wound healing wound healing involved in inflammatory response inflammatory response to wounding response to wounding interleukin-10 production regulation of interleukin-10 production positive regulation of interleukin-10 production regulation of type II interferon production type II interferon production negative regulation of type II interferon production defense response to Gram-negative bacterium 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 macrophage activation cell activation myeloid leukocyte activation leukocyte activation interleukin-17 production negative regulation of interleukin-17 production regulation of interleukin-17 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 interferon-alpha production regulation of interferon-alpha production positive regulation of type I interferon production type I interferon production positive regulation of interferon-alpha production regulation of type I interferon production detection of external biotic stimulus response to lipid detection of lipopolysaccharide response to oxygen-containing compound detection of molecule of bacterial origin detection of biotic stimulus response to lipopolysaccharide detection of stimulus detection of chemical stimulus response to molecule of bacterial origin positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction positive regulation of signaling regulation of macrophage activation positive regulation of macrophage activation regulation of leukocyte activation regulation of cell activation positive regulation of cell activation positive regulation of leukocyte activation immune response-regulating cell surface receptor signaling pathway cell surface toll-like receptor signaling pathway immune response-activating cell surface receptor signaling pathway innate immune response activating cell surface receptor signaling pathway cell surface pattern recognition receptor signaling pathway cell surface receptor signaling pathway toll-like receptor 4 signaling pathway cellular response to endogenous stimulus cellular response to growth factor stimulus cellular response to platelet-derived growth factor stimulus response to growth factor response to platelet-derived growth factor positive regulation of interleukin-6 production cellular response to lipopolysaccharide lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus cellular response to molecule of bacterial origin cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to lipid regulation of programmed cell death extrinsic apoptotic signaling pathway positive regulation of apoptotic signaling pathway positive regulation of programmed cell death regulation of apoptotic process positive regulation of extrinsic apoptotic signaling pathway cell death positive regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway apoptotic process programmed cell death regulation of apoptotic signaling pathway regulation of interleukin-12 production interleukin-12 production positive regulation of interleukin-12 production TRIF-dependent toll-like receptor signaling pathway MyD88-independent toll-like receptor signaling pathway regulation of interferon-beta production interferon-beta production positive regulation of interferon-beta production regulation of NLRP3 inflammasome complex assembly positive regulation of NLRP3 inflammasome complex assembly cellular component biogenesis cellular component assembly inflammasome-mediated signaling pathway canonical inflammasome complex assembly positive regulation of pattern recognition receptor signaling pathway positive regulation of inflammasome-mediated signaling pathway regulation of inflammasome-mediated signaling pathway regulation of pattern recognition receptor signaling pathway NLRP3 inflammasome complex assembly cytoplasmic pattern recognition receptor signaling pathway regulation of cellular component organization positive regulation of cellular component organization intracellular receptor signaling pathway regulation of cytoplasmic pattern recognition receptor signaling pathway cellular component organization regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly protein-containing complex assembly cellular component organization or biogenesis protein-containing complex organization positive regulation of cellular component biogenesis regulation of cellular component biogenesis response to type II interferon response to cytokine cellular response to type II interferon response to peptide cellular response to cytokine stimulus response to mechanical 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 regulation of response to macrophage colony-stimulating factor response to macrophage colony-stimulating factor positive regulation of response to cytokine stimulus cellular response to macrophage colony-stimulating factor stimulus regulation of response to cytokine stimulus regulation of cellular response to macrophage colony-stimulating factor stimulus positive regulation of response to macrophage colony-stimulating factor positive regulation of cellular response to macrophage colony-stimulating factor stimulus detection of other organism response to fungus detection of fungus adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains T-helper 1 type immune response adaptive immune response reactive oxygen species biosynthetic process positive regulation of reactive oxygen species biosynthetic process reactive oxygen species metabolic process regulation of reactive oxygen species biosynthetic process positive regulation of reactive oxygen species metabolic process regulation of reactive oxygen species metabolic process regulation of cytokine production involved in inflammatory response production of molecular mediator involved in inflammatory response cytokine production involved in inflammatory response positive regulation of cytokine production involved in inflammatory response regulation of body fluid levels positive regulation of platelet activation coagulation regulation of biological quality hemostasis blood coagulation regulation of platelet activation platelet activation positive regulation of tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production negative regulation of cold-induced thermogenesis adaptive thermogenesis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis cellular response to nitrogen compound response to nitrogen compound cellular response to amyloid-beta response to amyloid-beta positive regulation of type II interferon production	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane intracellular anatomical structure cytoplasm protein-containing complex signaling receptor complex ruffle cell projection cell leading edge cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane intracellular anatomical structure cytoplasm protein-containing complex signaling receptor complex ruffle cell projection cell leading edge plasma membrane bounded cell projection perinuclear region of cytoplasm endosome membrane membrane-bounded organelle endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle vesicle organelle membrane phagocytic cup lipopolysaccharide receptor complex membrane protein complex early endosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001611	Leucine-rich repeat	Repeat
A	IPR017241	Toll-like receptor	Family
A	IPR035897	Toll/interleukin-1 receptor homology (TIR) domain superfamily	Homologous Superfamily
A	IPR000483	Cysteine-rich flanking region, C-terminal	Domain
A	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain	Domain
A	IPR003591	Leucine-rich repeat, typical subtype	Repeat
A	IPR025875	Leucine rich repeat 4	Repeat
A	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Bitopic proteins	Leucine rich repeat-containing transmembrane proteins	Toll-like receptors

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

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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.