4WO1 | pdb_00004wo1

Crystal structure of the DAP12 transmembrane domain in lipid cubic phase

External Resource: Annotation

Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	DEAD	e4wo1D1	A: alpha bundles	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: DEAD	ECOD (develop294)
C	DEAD	e4wo1C1	A: alpha bundles	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: DEAD	ECOD (develop294)
B	DEAD	e4wo1B1	A: alpha bundles	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: DEAD	ECOD (develop294)
A	DEAD	e4wo1A1	A: alpha bundles	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: DEAD	ECOD (develop294)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	TYRO protein tyrosine kinase-binding protein	protein binding binding signaling receptor binding protein-macromolecule adaptor activity molecular adaptor activity identical protein binding protein homodimerization activity protein dimerization activity cation binding ion binding metal ion binding small molecule binding	negative regulation of long-term synaptic potentiation positive regulation of cell communication regulation of cellular process modulation of chemical synaptic transmission signaling positive regulation of biological process negative regulation of biological process cell communication long-term synaptic potentiation synaptic signaling regulation of biological quality positive regulation of cellular process regulation of synaptic plasticity trans-synaptic signaling negative regulation of long-term synaptic potentiation positive regulation of cell communication regulation of cellular process modulation of chemical synaptic transmission signaling positive regulation of biological process negative regulation of biological process cell communication long-term synaptic potentiation synaptic signaling regulation of biological quality positive regulation of cellular process regulation of synaptic plasticity trans-synaptic signaling regulation of biological process regulation of signaling biological regulation cell-cell signaling positive regulation of synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of long-term synaptic potentiation regulation of cell communication cellular process positive regulation of signaling response to stimulus response to stress response to wounding response to axon injury reactive oxygen species metabolic process regulation of superoxide metabolic process positive regulation of reactive oxygen species metabolic process superoxide metabolic process positive regulation of metabolic process superoxide anion generation metabolic process positive regulation of superoxide anion generation regulation of superoxide anion generation regulation of metabolic process regulation of reactive oxygen species metabolic process negative regulation of lymphocyte proliferation multicellular organismal process regulation of leukocyte activation regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte proliferation leukocyte activation negative regulation of mononuclear cell proliferation negative regulation of leukocyte proliferation regulation of B cell proliferation lymphocyte proliferation regulation of B cell activation negative regulation of cellular process regulation of immune system process regulation of multicellular organismal process negative regulation of B cell activation regulation of lymphocyte proliferation regulation of leukocyte proliferation negative regulation of cell population proliferation cell population proliferation B cell activation cell activation B cell proliferation negative regulation of B cell proliferation negative regulation of cell activation negative regulation of immune system process regulation of cell population proliferation mononuclear cell proliferation immune system process regulation of mononuclear cell proliferation negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation negative regulation of type I interferon production cytokine production regulation of cytokine production negative regulation of macromolecule metabolic process regulation of biosynthetic process type I interferon production negative regulation of metabolic process negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of type I interferon production myeloid leukocyte activation regulation of protein stability protein stabilization positive regulation of macromolecule biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process positive regulation of macromolecule metabolic process interleukin-6 production positive regulation of interleukin-6 production regulation of interleukin-6 production positive regulation of multicellular organismal process positive regulation of cytokine production defense response macrophage activation involved in immune response immune response cell activation involved in immune response myeloid cell activation involved in immune response immune effector process macrophage activation microglial cell activation involved in immune response leukocyte activation involved in inflammatory response leukocyte activation involved in immune response microglial cell activation inflammatory response glial cell activation neuroinflammatory response amyloid-beta clearance cellular response to stimulus integrin-mediated signaling pathway cell surface receptor signaling pathway signal transduction microglial cell mediated cytotoxicity regulation of immune effector process regulation of myeloid leukocyte mediated immunity positive regulation of leukocyte mediated immunity myeloid leukocyte mediated immunity positive regulation of leukocyte mediated cytotoxicity leukocyte mediated immunity positive regulation of immune effector process positive regulation of immune system process regulation of leukocyte mediated cytotoxicity positive regulation of microglial cell mediated cytotoxicity leukocyte mediated cytotoxicity regulation of leukocyte mediated immunity positive regulation of myeloid leukocyte mediated immunity regulation of cell killing positive regulation of cell killing regulation of microglial cell mediated cytotoxicity cell killing positive regulation of response to biotic stimulus immune response-regulating cell surface receptor signaling pathway response to biotic stimulus immune response-activating signaling pathway positive regulation of immune response innate immune response-activating signaling pathway response to other organism immune response-activating cell surface receptor signaling pathway regulation of innate immune response response to external stimulus regulation of response to stimulus response to lectin defense response to other organism cellular response to lectin positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus innate immune response activating cell surface receptor signaling pathway positive regulation of response to stimulus positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of response to stress innate immune response response to external biotic stimulus positive regulation of innate immune response defense response to symbiont stimulatory C-type lectin receptor signaling pathway cellular component organization organelle organization actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization regulation of transforming growth factor beta production transforming growth factor beta1 production regulation of transforming growth factor beta1 production transforming growth factor beta production negative regulation of transforming growth factor beta1 production negative regulation of transforming growth factor beta production stimulatory killer cell immunoglobulin-like receptor signaling pathway negative regulation of interleukin-10 production interleukin-10 production regulation of interleukin-10 production interleukin-1 production regulation of interleukin-1 beta production positive regulation of interleukin-1 beta production positive regulation of interleukin-1 production regulation of interleukin-1 production interleukin-1 beta production developmental process head development forebrain development animal organ development brain development nervous system development multicellular organism development central nervous system development anatomical structure development system development semaphorin-plexin signaling pathway regulation of localization regulation of protein localization positive regulation of protein localization to cell surface localization protein localization to cell surface macromolecule localization positive regulation of protein localization regulation of protein localization to cell surface intracellular protein localization cellular defense response positive regulation of lymphocyte activation positive regulation of cell activation positive regulation of leukocyte activation regulation of natural killer cell activation positive regulation of natural killer cell activation natural killer cell activation regulation of leukocyte differentiation regulation of cell differentiation regulation of cell development positive regulation of developmental process skeletal system development cell differentiation regulation of osteoclast development positive regulation of cell development regulation of myeloid leukocyte differentiation osteoclast development positive regulation of myeloid leukocyte differentiation leukocyte differentiation myeloid leukocyte differentiation cellular developmental process regulation of developmental process cell development positive regulation of osteoclast differentiation regulation of osteoclast differentiation positive regulation of cell differentiation positive regulation of hemopoiesis bone cell development osteoclast differentiation bone development positive regulation of osteoclast development regulation of multicellular organismal development hemopoiesis regulation of myeloid cell differentiation myeloid cell differentiation myeloid cell development positive regulation of myeloid cell differentiation regulation of hemopoiesis positive regulation of leukocyte differentiation receptor localization to synapse positive regulation of receptor localization to synapse regulation of receptor localization to synapse intracellular signal transduction macrophage fusion positive regulation of cellular component organization regulation of cellular component organization regulation of syncytium formation by plasma membrane fusion cell-cell fusion syncytium formation positive regulation of macrophage fusion positive regulation of syncytium formation by plasma membrane fusion syncytium formation by plasma membrane fusion anatomical structure morphogenesis regulation of macrophage fusion anatomical structure formation involved in morphogenesis 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 T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell T cell activation involved in immune response T cell activation lymphocyte activation involved in immune response import into cell transport phagocytosis apoptotic cell clearance endocytosis establishment of localization vesicle-mediated transport cellular response to nitrogen compound response to oxygen-containing compound response to nitrogen compound cellular response to amyloid-beta cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical response to amyloid-beta lymphocyte mediated immunity natural killer cell mediated immunity neutrophil activation neutrophil activation involved in immune response granulocyte activation	cellular anatomical structure membrane cell surface cell periphery plasma membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cellular anatomical structure membrane cell surface cell periphery plasma membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR026200	TYRO protein tyrosine kinase-binding protein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: O43914	polycystic lipomembranous osteodysplasia with sclerosing leukoencephaly liver disease Liver Cirrhosis, Experimental polycystic lipomembranous osteodysplasia with sclerosing leukoencephalopathy 1 lung cancer MALT lymphoma nephrosclerosis osteogenesis imperfecta acute myeloid leukemia pancreatic ductal adenocarcinoma B-cell chronic lymphocytic leukemia pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia cutaneous lupus erythematosus gastric carcinoma ulcerative colitis polycystic lipomembranous osteodysplasia with sclerosing leukoencephaly liver disease Liver Cirrhosis, Experimental polycystic lipomembranous osteodysplasia with sclerosing leukoencephalopathy 1 lung cancer MALT lymphoma nephrosclerosis osteogenesis imperfecta acute myeloid leukemia pancreatic ductal adenocarcinoma B-cell chronic lymphocytic leukemia pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia cutaneous lupus erythematosus gastric carcinoma ulcerative colitis IgA glomerulonephritis juvenile dermatomyositis limb-girdle muscular dystrophy lung carcinoma medulloblastoma nephrotic syndrome osteosarcoma adrenal cortex carcinoma pancreatic intraductal papillary-mucinous carcinoma Becker muscular dystrophy pilocytic astrocytoma dermatomyositis schizophrenia glioblastoma interstitial cystitis large cell medulloblastoma lung adenocarcinoma malignant pancreatic neoplasm nasopharyngeal carcinoma non-small cell lung carcinoma ovarian cancer astrocytic tumor pancreatic intraductal papillary-mucinous neoplasm chronic obstructive pulmonary disease Duchenne muscular dystrophy subependymal giant cell astrocytoma head and neck cancer invasive ductal breast carcinoma leukodystrophy

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D	OPM	Transmembrane	Bitopic proteins	TYROBP	TYROBP

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Immune Receptors	DAP12 signaling domain trimer

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.

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