NEDD4

E3 ubiquitin-protein ligase NEDD4 also known as neural precursor cell expressed developmentally down-regulated protein 4 (NEDD4) is an enzyme that in humans is encoded by the NEDD4 gene.[3][4]

NEDD4
Available structures PDB Human UniProt search: PDBe RCSB List of PDB id codes 2KPZ, 2KQ0, 2M3O, 2XBB, 2XBF, 3B7Y, 4BBN, 4BE8, 4N7F, 4N7H, 5C91, 5AHT, 5C7J
Identifiers
Aliases	NEDD4, NEDD4-1, RPF1, neural precursor cell expressed, developmentally down-regulated 4, E3 ubiquitin protein ligase, NEDD4 E3 ubiquitin protein ligase
External IDs	OMIM: 602278 HomoloGene: 136740 GeneCards: NEDD4
Gene location (Human) Chr. Chromosome 15 (human)[1] Band 15q21.3 Start 55,826,922 bp[1] End 55,993,746 bp[1]
RNA expression pattern More reference expression data
Gene ontology Molecular function • protein domain specific binding • ubiquitin-protein transferase activity • sodium channel inhibitor activity • beta-2 adrenergic receptor binding • ubiquitin binding • GO:0001948 protein binding • RNA polymerase binding • proline-rich region binding • phosphoserine residue binding • phosphothreonine residue binding • ionotropic glutamate receptor binding • transferase activity • GO:1904264, GO:1904822, GO:0090622, GO:0090302 ubiquitin protein ligase activity Cellular component • cytoplasm • cytosol • Golgi apparatus • membrane • ubiquitin ligase complex • cell membrane • apicolateral plasma membrane • cell cortex • perinuclear region of cytoplasm • chromatin • extracellular exosome • dendritic spine • glutamatergic synapse • postsynaptic cytosol Biological process • protein targeting to lysosome • adaptive immune response • positive regulation of protein catabolic process • blood vessel morphogenesis • negative regulation of sodium ion transport • cellular response to UV • endocardial cushion development • negative regulation of vascular endothelial growth factor receptor signaling pathway • protein K63-linked ubiquitination • regulation of membrane potential • negative regulation of sodium ion transmembrane transporter activity • regulation of ion transmembrane transport • negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage • outflow tract morphogenesis • receptor internalization • negative regulation of transcription from RNA polymerase II promoter • protein monoubiquitination • receptor catabolic process • nervous system development • regulation of dendrite morphogenesis • response to calcium ion • positive regulation of nucleocytoplasmic transport • neuromuscular junction development • protein ubiquitination • regulation of potassium ion transmembrane transporter activity • lysosomal transport • ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway • positive regulation of phosphatidylinositol 3-kinase signaling • progesterone receptor signaling pathway • GO:0022415 viral process • neuron projection development • regulation of synapse organization • T cell activation • regulation of macroautophagy • glucocorticoid receptor signaling pathway • protein polyubiquitination • ubiquitin-dependent protein catabolic process • proteasome-mediated ubiquitin-dependent protein catabolic process Sources:Amigo / QuickGO
Orthologs
Species	Human	Mouse
Entrez	4734	n/a
Ensembl	ENSG00000069869	n/a
UniProt	P46934	n/a
RefSeq (mRNA)	NM_001284338 NM_001284339 NM_001284340 NM_006154 NM_198400 NM_001329212	n/a
RefSeq (protein)	NP_001271267 NP_001271268 NP_001271269 NP_001316141 NP_006145 NP_940682	n/a
Location (UCSC)	Chr 15: 55.83 – 55.99 Mb	n/a
PubMed search	[2]	n/a
Wikidata
View/Edit Human

NEDD4 is an E3 ubiquitin ligase enzyme that targets proteins for ubiquitination.[5] NEDD4 is a highly conserved gene in eukaryotes, and is the founding member of the NEDD4 family of E3 HECT ubiquitin ligases, consisting of 9 members in humans [NEDD4 (this gene), NEDD4-2 (NEDD4L), ITCH, SMURF1, SMURF2, WWP1, WWP2, NEDL1 (HECW1) and NEDDL2 (HECW2)].[6][7][8] NEDD4 regulates a large number of membrane proteins, such as ion channels and membrane receptors, via ubiquitination and endocytosis.

NEDD4 protein is widely expressed, and a large number of proteins have been predicted or demonstrated to bind in vitro. In vivo NEDD4 is involved in the regulation of a diverse range of processes,[5] including insulin-like growth factor signalling, neuronal architecture and viral budding. NEDD4 is an essential protein for animal development and survival.[9]

Structure

The NEDD4 protein has a modular structure that is shared among the NEDD4 family, consisting of an amino-terminal C2 calcium-dependent phospholipid binding domain, 3-4 WW protein-protein interaction domains, and a carboxyl-terminal catalytic HECT ubiquitin ligase domain.[10] The C2 domain targets proteins to the phospholipid membrane, and can also be involved in targeting substrates.[11] The WW domains interact with proline rich PPxY motifs in target proteins to mediate interactions with substrates and adaptors.[12] The catalytic HECT domain forms a thioester bond with activated ubiquitin transferred from an E2 ubiquitin conjugating enzyme, before transferring ubiquitin directly to a specific substrate.[6]

Expression

The human NEDD4 gene is located on chromosome 15q21.3, and consists of 30 exons that transcribe five protein variants of NEDD4, all of which vary in the C2 domain but share 100% identity from the first WW domain through to the end of the protein.[13] The mouse Nedd4 gene is located on chromosome 9.[3] NEDD4 is a 120kDa protein that is expressed in most tissues, including brain, heart, lung, kidney, and skeletal muscle.[14] The NEDD4 protein localizes to the cytoplasm, mainly in the perinuclear region and cytoplasmic periphery.[3][14]

Function

In vitro, NEDD4 has been shown to bind and ubiquitinate a number of ion channels and membrane transporters resulting in their subsequent endocytosis and degradation by the proteasome, including the epithelial sodium channel (ENaC), voltage-gated calcium and voltage-gated sodium channels.[15][16][17][18]

NEDD4 mediates ubiquitination and subsequent down-regulation of components of the epidermal growth factor (EGF) signalling pathway, such as HER3 and HER4 EGF receptors, and ACK.[19][20][21]

The fibroblast growth factor receptor 1 (FGFR1) undergoes NEDD4 mediated ubiquitination and down-regulation, and contains a novel site (VL***PSR) that binds the C2 and WW3 domain of NEDD4.[22]

There is a role for NEDD4 in viral budding via ubiquitination of viral matrix proteins for a number of viruses,[8] and NEDD4 also interacts with components of the endocytic machinery required for budding.[23]

NEDD4 can also function independently of its ubiquitin ligase activity. NEDD4 interacts with VEGFR2, leading to the degradation of VEGFR2 irrespective of whether the HECT domain is catalytically active.[24]

NEDD4 can bind and ubiquitinate the epithelial sodium channel (ENaC), leading to down-regulation of sodium channel activity.[16] However, in vivo studies have implicated the NEDD4 family member NEDD4-2 as the main ligase responsible for ENaC regulation.[25][26][27]

Regulation

NEDD4 activity can be regulated by auto-inhibition, whereby the C2 domain binds to the HECT domain to create an inhibitory conformation of the protein.[28] This auto-inhibitory conformation can be disrupted by the presence of calcium, by proteins that bind to NEDD4 to prevent this conformation, or by phosphorylation of NEDD4 at specific tyrosine residues to activate NEDD4 ubiquitin ligase activity.[28][29]

The NDFIP1 and NDFIP2 proteins function as adaptor proteins that can facilitate NEDD4 binding to substrates that lack PY motifs, as well as a role in binding NEDD4 to abrogate auto-inhibition.[30][31] NDFIP1 may also regulate NEDD4 recruitment to exosomes for secretion.[32]

Oxidative stress induces the activation of NEDD4 transcription via the FOXM1B transcription factor.[33] Ras signalling also up-regulates NEDD4 transcription.[34]

Physiological significance

In vivo, NEDD4 is involved in the regulation of insulin and insulin-like growth factor (IGF-1) signalling by regulating the amount of insulin receptor (IR) and insulin-like growth factor 1 receptor (IGF-1R) on the cell surface.[9][35]

The deletion of NEDD4 in mice leads to a reduced number of effector T-cells, and a slower T-cell response to antigen, suggesting that NEDD4 may function to convert naïve T-cells into activated T-cells.[36]

NEDD4 plays an important role in neuronal development, and is responsible for the formation and arborisation of dendrites in neurons by forming a signalling complex with TINK and Rap2A.[37] It is also required for proper formation and function of neuromuscular junctions, and normal numbers of cranial neural crest cells, motor neurons and axons.[38][39]

NEDD4 has been shown to interact with and ubiquitinate the tumour suppressor protein PTEN in vitro, resulting in PTEN proteasomal degradation or trafficking.[40][41] The in vivo role of NEDD4 in PTEN regulation is less clear. There is some evidence from NEDD4 deficient mice that NEDD4 does not target PTEN for degradation or trafficking.[9][42][43] However, in other in vivo models, and in many human cancer cell lines, NEDD4 does appear responsible for the degradation of PTEN.[34][44][45][46][47] NEDD4 regulation of PTEN may only occur in specific biological contexts.

The role of NEDD4 in negatively regulating tumour suppressor proteins is consistent with the frequent overexpression of NEDD4 in many different types of human cancers.[48][49] Decreased levels of NEDD4 have also been associated with some cancers, including neuroblastoma and pancreatic cancer where the NEDD4 directly targets the respective oncoproteins N-Myc and c-Myc associated with these cancers for degradation.[50]

Notes

References

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44. Christie KJ, Martinez JA, Zochodne DW (2012). "Disruption of E3 ligase NEDD4 in peripheral neurons interrupts axon outgrowth: Linkage to PTEN". Mol. Cell. Neurosci. 50 (2): 179–92. doi:10.1016/j.mcn.2012.04.006. PMID 22561198.
45. Drinjakovic J, Jung H, Campbell DS, Strochlic L, Dwivedy A, Holt CE (2010). "E3 ligase Nedd4 promotes axon branching by downregulating PTEN". Neuron. 65 (3): 341–57. doi:10.1016/j.neuron.2010.01.017. PMC 2862300. PMID 20159448.
46. Hong SW, Moon JH, Kim JS, Shin JS, Jung KA, Lee WK, Jeong SY, Hwang JJ, Lee SJ, Suh YA, Kim I, Nam KY, Han S, Kim JE, Kim KP, Hong YS, Lee JL, Lee WJ, Choi EK, Lee JS, Jin DH, Kim TW (2014). "p34 is a novel regulator of the oncogenic behavior of NEDD4-1 and PTEN". Cell Death Differ. 21 (1): 146–60. doi:10.1038/cdd.2013.141. PMC 3857621. PMID 24141722.
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48. Chen C, Matesic LE (2007). "The Nedd4-like family of E3 ubiquitin ligases and cancer". Cancer Metastasis Rev. 26 (3–4): 587–604. doi:10.1007/s10555-007-9091-x. PMID 17726579.
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External links

• Overview of all the structural information available in the PDB for UniProt: P46934 (E3 ubiquitin-protein ligase NEDD4) at the PDBe-KB.