1C28

THE CRYSTAL STRUCTURE OF A COMPLMENT-1Q FAMILY PROTEIN SUGGESTS AN EVOLUTIONARY LINK TO TUMOR NECROSIS FACTOR

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

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1c28a_	All beta proteins	TNF-like	TNF-like	TNF-like	30 kDa adipocyte complement-related protein	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d1c28b_	All beta proteins	TNF-like	TNF-like	TNF-like	30 kDa adipocyte complement-related protein	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d1c28c_	All beta proteins	TNF-like	TNF-like	TNF-like	30 kDa adipocyte complement-related protein	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	TNF-like	8035611	3000061	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TNF-like	8035611	3000061	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	C1q	e1c28A1	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: C1q	ECOD (1.6)
B	C1q	e1c28B1	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: C1q	ECOD (1.6)
C	C1q	e1c28C1	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: C1q	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
B	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
C	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00386	C1q domain (C1q)	C1q domain	C1q is a subunit of the C1 enzyme complex that activates the serum complement system.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	PROTEIN (30 KD ADIPOCYTE COMPLEMENT-RELATED PROTEIN PRECURSOR (ACRP30))	enzyme regulator activity protein serine/threonine kinase activator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity identical protein binding protein binding binding sialic acid binding organic acid binding enzyme regulator activity protein serine/threonine kinase activator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity identical protein binding protein binding binding sialic acid binding organic acid binding ion binding anion binding carboxylic acid binding carbohydrate derivative binding small molecule binding signaling receptor binding protein homodimerization activity protein dimerization activity hormone activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity	positive regulation of cholesterol efflux regulation of localization transport positive regulation of sterol transport positive regulation of biological process regulation of lipid transport organic hydroxy compound transport localization regulation of cholesterol efflux sterol transport regulation of cholesterol transport positive regulation of cholesterol transport regulation of sterol transport regulation of biological process positive regulation of cholesterol efflux regulation of localization transport positive regulation of sterol transport positive regulation of biological process regulation of lipid transport organic hydroxy compound transport localization regulation of cholesterol efflux sterol transport regulation of cholesterol transport positive regulation of cholesterol transport regulation of sterol transport regulation of biological process regulation of transport organic substance transport biological regulation lipid localization lipid transport positive regulation of lipid localization establishment of localization positive regulation of lipid transport positive regulation of transport regulation of lipid localization macromolecule localization cholesterol transport cholesterol efflux cellular response to stimulus regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of biological process regulation of signal transduction regulation of platelet-derived growth factor receptor signaling pathway negative regulation of cell communication cell surface receptor protein tyrosine kinase signaling pathway cell communication negative regulation of cellular process signal transduction enzyme-linked receptor protein signaling pathway regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of platelet-derived growth factor receptor signaling pathway platelet-derived growth factor receptor signaling pathway negative regulation of signal transduction regulation of response to stimulus regulation of cell communication cellular process multicellular organismal process regulation of tumor necrosis factor production cellular biosynthetic process negative regulation of cellular metabolic process negative regulation of tumor necrosis factor production organic substance metabolic process cytokine production organic substance biosynthetic process regulation of cytokine production regulation of multicellular organismal process negative regulation of macromolecule metabolic process regulation of biosynthetic process cellular metabolic process negative regulation of metabolic process tumor necrosis factor superfamily cytokine production regulation of cellular metabolic process negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process tumor necrosis factor production negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of tumor necrosis factor superfamily cytokine production metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process regulation of catalytic activity negative regulation of catalytic activity regulation of transferase activity regulation of MAP kinase activity intracellular signal transduction regulation of primary metabolic process negative regulation of kinase activity negative regulation of transferase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process intracellular signaling cassette negative regulation of protein modification process phosphorus metabolic process protein modification process negative regulation of protein metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process primary metabolic process regulation of MAPK cascade regulation of molecular function regulation of kinase activity negative regulation of protein phosphorylation regulation of protein serine/threonine kinase activity macromolecule modification regulation of phosphorus metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of intracellular signal transduction negative regulation of phosphate metabolic process regulation of intracellular signal transduction negative regulation of protein serine/threonine kinase activity protein metabolic process organonitrogen compound metabolic process negative regulation of molecular function negative regulation of MAP kinase activity regulation of protein kinase activity negative regulation of protein kinase activity negative regulation of phosphorus metabolic process MAPK cascade regulation of phosphorylation negative regulation of phosphorylation negative regulation of MAPK cascade regulation of leukocyte differentiation myeloid leukocyte differentiation cellular developmental process regulation of developmental process cell development regulation of cell differentiation mononuclear cell differentiation regulation of cell development multicellular organism development cell differentiation anatomical structure development regulation of immune system process negative regulation of cell differentiation negative regulation of macrophage differentiation regulation of macrophage 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 macrophage differentiation regulation of myeloid leukocyte differentiation negative regulation of myeloid cell differentiation negative regulation of myeloid leukocyte differentiation negative regulation of cell development myeloid cell differentiation negative regulation of immune system process immune system process regulation of hemopoiesis leukocyte differentiation protein localization protein localization to cell periphery cellular localization protein localization to plasma membrane cellular macromolecule localization localization within membrane protein localization to membrane negative regulation of ERK1 and ERK2 cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of molecular function positive regulation of glycogen (starch) synthase activity positive regulation of transferase activity positive regulation of catalytic activity regulation of glycogen (starch) synthase activity regulation of lipid transporter activity regulation of transporter activity positive regulation of lipid transporter activity positive regulation of transporter activity myeloid cell apoptotic process positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process positive regulation of myeloid cell apoptotic process apoptotic process regulation of myeloid cell apoptotic process programmed cell death positive regulation of cellular process embryo development negative regulation of cell adhesion regulation of cell-cell adhesion involved in gastrulation heterotypic cell-cell adhesion cell adhesion cell-cell adhesion regulation of cell-cell adhesion regulation of heterotypic cell-cell adhesion cell-cell adhesion via plasma-membrane adhesion molecules cell-cell adhesion involved in gastrulation regulation of cell adhesion embryonic morphogenesis gastrulation anatomical structure morphogenesis negative regulation of heterotypic cell-cell adhesion negative regulation of cell-cell adhesion monosaccharide metabolic process carbohydrate metabolic process hexose metabolic process small molecule metabolic process glucose metabolic process positive regulation of interleukin-8 production positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process interleukin-8 production positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of cytokine production positive regulation of cellular biosynthetic process regulation of interleukin-8 production negative regulation of locomotion regulation of cell motility regulation of metanephric mesenchymal cell migration regulation of kidney development renal system development negative regulation of metanephros development metanephros development negative regulation of kidney development regulation of cell migration cell migration cell migration involved in kidney development cell motility locomotion negative regulation of cell migration system development animal organ development cell migration involved in metanephros development regulation of locomotion metanephric mesenchymal cell migration negative regulation of cell motility regulation of metanephros development negative regulation of metanephric mesenchymal cell migration kidney development positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus positive regulation of intracellular signal transduction regulation of protein kinase A signaling protein kinase A signaling positive regulation of protein kinase A signaling positive regulation of signaling response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels response to abiotic stimulus fat cell differentiation brown fat cell differentiation trans-synaptic signaling modulation of chemical synaptic transmission cell-cell signaling negative regulation of synaptic transmission chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling kidney epithelium development metanephric glomerulus development epithelial cell differentiation positive regulation of developmental process regulation of metanephric podocyte development nephron development epithelium development positive regulation of cell development tissue development epithelial cell development renal filtration cell differentiation metanephric glomerular epithelial cell development positive regulation of metanephric podocyte development glomerular epithelial cell differentiation metanephric epithelium development metanephric glomerular epithelium development positive regulation of cell differentiation metanephric glomerular epithelial cell differentiation metanephric nephron development metanephric nephron epithelium development nephron epithelium development epithelial cell differentiation involved in kidney development metanephric podocyte development glomerular epithelium development cell differentiation involved in metanephros development glomerulus development podocyte development cell differentiation involved in kidney development metanephric podocyte differentiation glomerular epithelial cell development podocyte differentiation cellular response to chemical stimulus response to chemical cellular response to xenobiotic stimulus response to xenobiotic stimulus positive regulation of phosphorylation positive regulation of phosphate metabolic process positive regulation of protein serine/threonine kinase activity positive regulation of protein phosphorylation positive regulation of phosphorus metabolic process positive regulation of kinase activity positive regulation of protein metabolic process positive regulation of protein modification process regulation of cAMP-dependent protein kinase activity positive regulation of protein kinase activity positive regulation of cAMP-dependent protein kinase activity response to organic substance response to lipid response to fatty acid response to oxygen-containing compound response to linoleic acid chemical homeostasis homeostatic process glucose homeostasis carbohydrate homeostasis regulation of vascular associated smooth muscle cell proliferation negative regulation of cell population proliferation cell population proliferation regulation of smooth muscle cell proliferation negative regulation of vascular associated smooth muscle cell proliferation smooth muscle cell proliferation negative regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation vascular associated smooth muscle cell proliferation negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription organic cyclic compound metabolic process organic cyclic compound biosynthetic process 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 nucleobase-containing compound biosynthetic process nucleic acid metabolic process negative regulation of fat cell differentiation regulation of fat cell differentiation renal system process system process regulation of renal system process regulation of system process renal albumin absorption regulation of renal albumin absorption positive regulation of renal albumin absorption renal absorption renal protein absorption macrophage derived foam cell differentiation negative regulation of macrophage derived foam cell differentiation foam cell differentiation regulation of macrophage derived foam cell differentiation positive regulation of canonical NF-kappaB signal transduction canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction rhythmic process circadian rhythm oxoacid metabolic process regulation of lipid metabolic process organic acid metabolic process cellular ketone metabolic process regulation of small molecule metabolic process positive regulation of lipid metabolic process positive regulation of fatty acid metabolic process fatty acid metabolic process regulation of cellular ketone metabolic process carboxylic acid metabolic process cellular lipid metabolic process regulation of fatty acid metabolic process monocarboxylic acid metabolic process positive regulation of small molecule metabolic process lipid metabolic process catabolic process organic acid catabolic process cellular lipid catabolic process cellular catabolic process monocarboxylic acid catabolic process fatty acid oxidation carboxylic acid catabolic process fatty acid beta-oxidation lipid oxidation lipid catabolic process lipid modification fatty acid catabolic process small molecule catabolic process organic substance catabolic process regulation of DNA biosynthetic process DNA metabolic process negative regulation of DNA metabolic process DNA biosynthetic process negative regulation of DNA biosynthetic process regulation of DNA metabolic process negative regulation of canonical NF-kappaB signal transduction response to activity 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 negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response regulation of granulocyte differentiation negative regulation of granulocyte differentiation granulocyte differentiation protein autophosphorylation regulation of protein autophosphorylation negative regulation of protein autophosphorylation regulation of vascular associated smooth muscle cell migration vascular associated smooth muscle cell migration negative regulation of vascular associated smooth muscle cell migration regulation of smooth muscle cell migration smooth muscle cell migration muscle cell migration negative regulation of smooth muscle cell migration cellular response to nitrogen compound response to organonitrogen compound response to endogenous stimulus response to organophosphorus cellular response to organic cyclic compound response to nitrogen compound response to purine-containing compound response to cAMP cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to organonitrogen compound cellular response to cAMP cellular response to organic substance response to organic cyclic compound regulation of hormone secretion negative regulation of transport hormone secretion negative regulation of secretion regulation of secretion by cell secretion by cell signal release negative regulation of hormone secretion negative regulation of secretion by cell regulation of biological quality secretion regulation of hormone levels export from cell regulation of secretion hormone transport response to hexose response to monosaccharide response to carbohydrate response to glucose regulation of monocyte chemotactic protein-1 production positive regulation of monocyte chemotactic protein-1 production monocyte chemotactic protein-1 production regulation of chemokine production chemokine production positive regulation of chemokine production response to sucrose response to disaccharide response to corticosteroid response to hormone response to steroid hormone response to glucocorticoid response to alcohol response to ethanol response to epinephrine cellular response to epinephrine stimulus negative regulation of protein transport establishment of protein localization nitrogen compound transport regulation of protein localization negative regulation of intracellular protein transport establishment of localization in cell negative regulation of protein localization regulation of intracellular transport negative regulation of intracellular transport regulation of establishment of protein localization negative regulation of establishment of protein localization intracellular transport regulation of protein transport protein transport regulation of cellular localization regulation of intracellular protein transport intracellular protein transport regulation of platelet-derived growth factor receptor-alpha signaling pathway negative regulation of platelet-derived growth factor receptor-alpha signaling pathway platelet-derived growth factor receptor-alpha signaling pathway negative regulation of receptor binding regulation of protein binding regulation of receptor binding negative regulation of protein binding regulation of binding negative regulation of binding adaptive thermogenesis multicellular organismal-level homeostasis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis biological process involved in interspecies interaction between organisms response to other organism response to bacterium response to external biotic stimulus response to biotic stimulus import into cell regulation of cellular component organization negative regulation of endocytosis vesicle-mediated transport cellular component organization negative regulation of phagocytosis phagocytosis cellular component organization or biogenesis regulation of endocytosis negative regulation of cellular component organization regulation of phagocytosis regulation of vesicle-mediated transport endocytosis negative regulation of small molecule metabolic process gluconeogenesis negative regulation of gluconeogenesis regulation of carbohydrate metabolic process regulation of glucose metabolic process negative regulation of carbohydrate metabolic process small molecule biosynthetic process carbohydrate biosynthetic process monosaccharide biosynthetic process hexose biosynthetic process regulation of gluconeogenesis regulation of carbohydrate biosynthetic process response to peptide hormone cellular response to peptide hormone stimulus response to insulin cellular response to insulin stimulus cellular response to hormone stimulus response to nutrient levels response to nutrient negative regulation of cold-induced thermogenesis hexose transmembrane transport glucose import carbohydrate transport positive regulation of transmembrane transport glucose transmembrane transport regulation of glucose import positive regulation of glucose transmembrane transport transmembrane transport regulation of glucose transmembrane transport regulation of transmembrane transport monosaccharide transmembrane transport positive regulation of glucose import carbohydrate transmembrane transport response to cytokine cytokine-mediated signaling pathway cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus regulation of tumor necrosis factor-mediated signaling pathway regulation of cytokine-mediated signaling pathway negative regulation of tumor necrosis factor-mediated signaling pathway regulation of response to cytokine stimulus negative regulation of response to cytokine stimulus negative regulation of cytokine-mediated signaling pathway response to tumor necrosis factor response to oxidative stress detection of oxidative stress plasma lipoprotein particle clearance low-density lipoprotein particle clearance regulation of plasma lipoprotein particle levels circulatory system process regulation of blood pressure negative regulation of blood pressure blood circulation peptidyl-tyrosine modification positive regulation of peptidyl-tyrosine phosphorylation peptidyl-amino acid modification regulation of peptidyl-tyrosine phosphorylation peptidyl-tyrosine phosphorylation	protein-containing complex collagen trimer intracellular anatomical structure perinuclear region of cytoplasm cytoplasm cellular anatomical entity extracellular region extracellular space cell surface cell periphery membrane-bounded organelle intracellular organelle organelle endoplasmic reticulum protein-containing complex collagen trimer intracellular anatomical structure perinuclear region of cytoplasm cytoplasm cellular anatomical entity extracellular region extracellular space cell surface cell periphery membrane-bounded organelle intracellular organelle organelle endoplasmic reticulum intracellular membrane-bounded organelle endomembrane system

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR008983	Tumour necrosis factor-like domain superfamily	Homologous Superfamily
A, B, C	IPR008160	Collagen triple helix repeat	Repeat
A, B, C	IPR001073	C1q domain	Domain

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.