7PFP | pdb_00007pfp

Full-length cryo-EM structure of the native human uromodulin (UMOD)/Tamm-Horsfall protein (THP) filament

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Zona_pellucida_C	e7pfpB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Zona_pellucida_C	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF23344	ZP-N domain (ZP-N)	ZP-N domain	This entry represents the N-terminal structural domain of the zona pellucida domain as defined by sequence.	Domain
A, B, C	PF23283	Uromodulin-like, D8C domain (D8C_UMOD)	Uromodulin-like, D8C domain	This domain, described as D8C domain (cysteine-rich domain), is found in human Uromodulin (UMOD) and similar animal proteins. UMOD functions in biogenesis and organization of the apical membrane of epithelial cells of the thick ascending limb of Henl ...	This domain, described as D8C domain (cysteine-rich domain), is found in human Uromodulin (UMOD) and similar animal proteins. UMOD functions in biogenesis and organization of the apical membrane of epithelial cells of the thick ascending limb of Henle's loop and may serve as a receptor for binding and endocytosis of cytokines (IL-1, IL-2) and TNF. This domain adopts a predominantly beta structure [3].	Domain
A, B, C	PF07645	Calcium-binding EGF domain (EGF_CA)	Calcium-binding EGF domain		Domain
A, B, C	PF12947	EGF domain (EGF_3)	EGF domain	This family includes a variety of EGF-like domain homologues. This family includes the C-terminal domain of the malaria parasite MSP1 protein [1].	Domain
A, B, C	PF00100	ZP-C domain (Zona_pellucida)	ZP-C domain	This entry represents the ZP-C domain that is the C-terminal structural domain that composes the zona pellucida domain that was originally defined by sequence.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Uromodulin	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein-containing complex binding immunoglobulin binding IgG binding	localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization regulation of body fluid levels multicellular organismal process renal system process system process biological regulation regulation of urine volume regulation of biological quality response to stimulus response to chemical localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization regulation of body fluid levels multicellular organismal process renal system process system process biological regulation regulation of urine volume regulation of biological quality response to stimulus response to chemical response to xenobiotic stimulus response to acid chemical response to stress response to oxygen-containing compound response to abiotic stimulus response to water response to water deprivation circulatory system process regulation of blood pressure blood circulation cellular response to stimulus catabolic process proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process ERAD pathway cellular response to stress cellular process metabolic process protein metabolic process macromolecule metabolic process response to endoplasmic reticulum stress protein folding biosynthetic process gene expression macromolecule biosynthetic process protein maturation developmental process multicellular organism development juxtaglomerular apparatus development anatomical structure development animal organ development kidney development renal system development system development autophagy process utilizing autophagic mechanism nitrogen compound transport organic anion transport transport urate transport establishment of localization cellular localization establishment of protein localization protein transport into membrane raft protein transport within lipid bilayer cellular component organization protein transport into plasma membrane raft establishment of localization in cell protein localization to plasma membrane raft cellular component organization or biogenesis protein localization to membrane raft membrane organization protein localization to cell periphery establishment of protein localization to membrane intracellular transport localization within membrane protein localization to membrane protein transport intracellular protein transport heterophilic cell-cell adhesion cell adhesion cell-cell adhesion inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis multicellular organismal response to stress regulation of localization regulation of biological process regulation of protein localization regulation of transport regulation of establishment of protein localization regulation of protein transport RNA splicing RNA metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process RNA processing metanephric thick ascending limb development kidney epithelium development metanephric epithelium development nephron tubule development metanephric distal tubule development metanephros development renal tubule development nephron development metanephric nephron epithelium development nephron epithelium development epithelium development tube development metanephric nephron tubule development tissue development distal tubule development metanephric tubule development thick ascending limb development potassium ion homeostasis regulation of cellular process cell surface receptor signaling pathway signaling response to cytokine cytokine-mediated signaling pathway cell communication response to peptide cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus signal transduction response to tumor necrosis factor leukocyte cell-cell adhesion defense response cellular defense response biological process involved in interspecies interaction between organisms response to other organism response to external stimulus defense response to Gram-negative bacterium response to biotic stimulus defense response to bacterium response to bacterium response to external biotic stimulus loop of Henle development metanephric loop of Henle development metanephric ascending thin limb development ascending thin limb development cellular response to topologically incorrect protein response to topologically incorrect protein cellular response to unfolded protein response to unfolded protein immune response immune system process organ or tissue specific immune response renal sodium ion transport metal ion transport renal absorption monoatomic ion transport renal sodium ion absorption monoatomic cation transport sodium ion transport phosphate ion homeostasis intracellular phosphate ion homeostasis sodium ion homeostasis intracellular sodium ion homeostasis intracellular monoatomic anion homeostasis intracellular chloride ion homeostasis monoatomic anion homeostasis chloride ion homeostasis lipid metabolic process collecting duct development glomerular filtration renal filtration protein localization to extracellular region organelle organization endoplasmic reticulum organization endomembrane system organization renal urate salt excretion excretion renal tubular secretion tricarboxylic acid transport citrate transport carboxylic acid transport secretion acid secretion organic acid transport citric acid secretion negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation negative regulation of cellular process negative regulation of biological process leukocyte migration myeloid leukocyte migration cell migration neutrophil migration cell motility granulocyte migration cell death apoptotic signaling pathway apoptotic process programmed cell death metanephric distal convoluted tubule development distal convoluted tubule development tissue remodeling connective tissue replacement inflammatory response micturition multicellular organismal-level homeostasis multicellular organismal-level water homeostasis multicellular organismal-level chemical homeostasis renal water homeostasis transmembrane transport one-carbon compound transport urea transport urea transmembrane transport response to lipid response to lipopolysaccharide response to molecule of bacterial origin defense response to symbiont antibacterial innate immune response defense response to other organism innate immune response	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton membrane extracellular exosome membrane-bounded organelle extracellular vesicle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cell periphery basal part of cell plasma membrane basal plasma membrane plasma membrane region basolateral plasma membrane side of membrane cell projection cilium plasma membrane bounded cell projection apical part of cell apical plasma membrane cell surface extrinsic component of membrane ciliary membrane bounding membrane of organelle organelle membrane cell projection membrane Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen organelle lumen cytoplasm endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR018097	EGF-like calcium-binding, conserved site	Conserved Site
A, B, C	IPR055355	ZP-C domain	Domain
A, B, C	IPR001881	EGF-like calcium-binding domain	Domain
A, B, C	IPR024731	NELL2-like, EGF domain	Domain
A, B, C	IPR049883	NOTCH1, EGF-like calcium-binding domain	Domain
A, B, C	IPR042235	Zona pellucida, ZP-C domain	Homologous Superfamily
A, B, C	IPR057774	UMOD/GP2/OIT3-like, D8C domain	Domain
A, B, C	IPR055356	ZP-N domain	Domain
A, B, C	IPR000742	EGF-like domain	Domain
A, B, C	IPR017977	Zona pellucida domain, conserved site	Conserved Site
A, B, C	IPR009030	Growth factor receptor cysteine-rich domain superfamily	Homologous Superfamily
A, B, C	IPR048290	Zona pellucida domain, chordate-type	Domain
A, B, C	IPR001507	Zona pellucida domain	Domain
A, B, C	IPR000152	EGF-type aspartate/asparagine hydroxylation site	PTM

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: P07911	glomerulocystic kidney disease with hyperuricemia and isosthenuria kidney disease familial juvenile hyperuricemic nephropathy hypertensive disorder medullary cystic kidney disease 2 familial juvenile hyperuricemic nephropathy type 1 nephronophthisis chronic kidney disease Cystic Kidney Diseases nephrolithiasis congenital anomaly of kidney and urinary tract

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.