Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002778
UniProt IDQ9NY59
Primary gene name(s)SMPD3
Synonym gene name(s)unknown
Protein nameSphingomyelin phosphodiesterase 3
Protein functionCatalyzes the hydrolysis of sphingomyelin to form ceramide and phosphocholine. Ceramide mediates numerous cellular functions, such as apoptosis and growth arrest, and is capable of regulating these 2 cellular events independently. Also hydrolyzes sphingosylphosphocholine. Regulates the cell cycle by acting as a growth suppressor in confluent cells. Probably acts as a regulator of postnatal development and participates in bone and dentin mineralization. {ECO:0000269|PubMed:10823942, ECO:0000269|PubMed:14741383, ECO:0000269|PubMed:15051724}.
Subcellular locationGolgi apparatus membrane {ECO:0000269|PubMed:10823942};
Lipid-anchor {ECO:0000269|PubMed:10823942}. Cell membrane {ECO:0000269|PubMed:15051724};
Lipid-anchor {ECO:0000269|PubMed:15051724}. Note=May localize to detergent-resistant subdomains of Golgi membranes of hypothalamic neurosecretory neurons, PubMed:10823942. Localizes to plasma membrane in confluent contact-inhaibited cells, PubMed:15051724.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9NY59
Gene Ontology
(Biological Process)
Complete annatation
cell cycle [GO:0007049];
glycosphingolipid metabolic process [GO:0006687];
hematopoietic progenitor cell differentiation [GO:0002244];
peptide hormone secretion [GO:0030072];
positive regulation of ceramide biosynthetic process [GO:2000304];
positive regulation of exosomal secretion [GO:1903543];
sphingomyelin catabolic process [GO:0006685]
Gene Ontology
(Molecular Function)
Complete annatation
metal ion binding [GO:0046872];
sphingomyelin phosphodiesterase activity [GO:0004767]
Gene Ontology
(Cellular Component)
Complete annatation
Golgi cis cisterna [GO:0000137];
Golgi membrane [GO:0000139];
plasma membrane [GO:0005886]
Protein-protein interaction120692
Phylogenetic treeQ9NY59
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      unknown
Brass et al., Science, 2008
      unknown
Smith et al., J. Immunol, 2010
      unknown
Interferon-stimulated
gene status
Lu et al., J. Virol., 2011
      Folds changes 8h: unknown; Folds changes 16h: unknown; Tested: unknown;
Schoggins JW and Rice CM, Curr. Opin. Virol., 2011
      Targeted viruses: unknown
      Viral life cycle: unknown
      Mechanism related to antiviral activity: unknown
Anti-viral restriction factor Liu et al., Retrovirology, 2011
      unknown (Triplicates)

Gene Expression Profile       top

            Up-regulated;            Down-regulated

For brief introduction to each study, please go to the help page.

Gene expression during HIV latency

(1). Mohammadi et al., PLoS Pathog., 2014

Differentially expressed transcripts (Pairwise) during latency and subsequent viral reactivation using several agents - Primary CD4+ T-cell based model


DMSO: Dimethyl suloxyde (negative control) - 0.0033% final
SAHA: Vorinostat (Histone deacetylase inhibitor) - 0.5 μM
CD3: TCR Stimulation by IL-2+ antiCD3/anti-CD28 antibodies
IL7: Interleukin-7 based stimulation
DISU: Disulfiram (alcohol dehydrogenase inhibitor) - 0.5 μM
AZA: 5-azacytidine (AZA; DNA methylation inhibitor) - 1 μM
Experimental Condition Log2 Fold Change P value Adjusted P value
AZA vs. CD3-5.4275362384618800
AZA vs. DISU-0.9813317903938350.03130841136963980.417279392560522
AZA vs. IL70.3927792709473230.289136192451810.999311006273513
AZA vs. SAHA-1.780971800316124.1812062501756e-050.00196347361417903
DISU vs. CD34.4364642932871700
DISU vs. IL71.363426251587420.001579429543659420.0368004642514153
DISU vs. SAHA-0.7957595579772980.09316692856405790.38996390564143
DMSO vs. AZA-0.03396274679828590.9236730462829711
DMSO vs. CD35.387326481814500
DMSO vs. DISU0.9472088993631230.02180575218848710.305511282278984
DMSO vs. IL70.4333402441339450.1727596737455810.683347989516843
DMSO vs. SAHA-1.75151001988616.05986693014149e-060.000380534393767343
HIV vs. Mock in Activation0.5242233813147130.4288393910195410.999983755607037
HIV vs. Mock in Latency-0.2116071714004610.7514263697889080.999834320637052
IL7 vs. CD35.8226568872432500
SAHA vs. CD33.6261363182590100
SAHA vs. IL7-2.173684726492689.799535805044e-086.42253055327101e-06
(2). Iglesias-Ussel et al., J. Virol., 2013

Up and Downregulated transcripts during Latency (Latently infected CD4+ T cells vs Uninfected)- Primary CD4+Tcell based model
Log2 Fold Change P Value
unknown unknown

Gene expression during HIV infection and replication

(1). Imbeault et al., PloS Pathog., 2012

Transcriptomic profiling of HIV-1 infected CD4+ T cells - Primary CD4+ T cells
Experiment type Log2 Fold Change P Value Adjusted P Value
Infected vs. Mock unknown unknown unknown
Infected vs. Bystander unknown unknown unknown
(2). Lefebvre et al., J. Virol., 2011

Transcriptome analysis of T-cell line (Sup T1)
Log2 Fold Change -1.141297849
(3). Li et al., J. Immunol., 2013

Lymphatic tissue
Acute Fold Change Acute P Value Asymt Fold Change Asypt P Value AIDS Fold Change AIDS P Value
unknown unknown unknown unknown unknown unknown
(4). Chang et al., MBio., 2011

Transcriptome analysis of T-cell line (Sup T1)

Derived from Sherrill-Mix et al., BMC Retrovirol., 2015 cross validation
Up-regulated (True) FALSE
(5). Sherrill-Mix et al., BMC Retrovirol., 2015

Deep RNA-seq analysis of primary human T cell infected with low passage HIV isolate HIV89.6 - Primary CD4+ T cell based
Test Status Log2 Fold Change P Value
OK 0.703414 0.000305467
(6). Rotger et al., PLoS Pathog., 2010

Genome-wide mRNA expression of CD4+ T cells from HIV-infected patient
(Genes differentially expressed (at adjusted p<0.01) according to the empirical Bayes approach)
Log2 Fold Change P Value
unknown unknown

Proteomic/Transcriptomics studies indicating differentially expressed genes mediated by HIV

(1). Greenwood et al., Elife, 2016

Activated (CD3/CD28) Primary human CD4+ T cells infected with pNL4-3-dE-EGFP. The table shows the complete (unfiltered) TMT (tandem mass tag)-based proteomic time course dataset
6 h 24 h 48 h 72 h RTi
unknown unknown unknown unknown unknown
(2). Navare et al., Virology, 2012

SUP-T1 cell line
FC-4hpi P-value FC-8hpi P-value FC-20hpi P-value Category
unknown unknown unknown unknown unknown unknown unknown
(3). Hyrcza et al., J. Virolo., 2007

Primary human CD4+ and CD8+ T Cells
Affymetrix Prob ID Fold Change In CD8? Category
unknown unknown unknown unknown

Protein Overview       top

Drug-protein Interaction       (annotations from DrugBank)      top

Drugbank ID Drug Name Drug Status Pharmacological Action Drug Action
DB00144 Phosphatidyl serine approved, nutraceutical unknown unknown

Protein Secondary Structure       (annotations from PDB)      top

not found

HIV-1 Interaction       (annotations from NCBI HIV-1 Interaction Database)      top

HIV Partner Interaction Type PubMed
Nef inhibits 22721673
Envelope surface glycoprotein gp120 activates 15509740
15509740
Envelope surface glycoprotein gp120 requires 22114277

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa00600 Sphingolipid metabolism - Homo sapiens (human)
hsa01100 Metabolic pathways - Homo sapiens (human)
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