Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0001995
UniProt IDQ7Z494
Primary gene name(s)NPHP3
Synonym gene name(s)KIAA2000
Protein nameNephrocystin-3
Protein functionRequired for normal ciliary development and function. Inhibits disheveled-1-induced canonical Wnt-signaling activity and may also play a role in the control of non-canonical Wnt signaling which regulates planar cell polarity. Probably acts as a molecular switch between different Wnt signaling pathways. Required for proper convergent extension cell movements. {ECO:0000269|PubMed:18371931}.
Subcellular locationCell projection, cilium {ECO:0000269|PubMed:20462968, ECO:0000269|PubMed:22085962}. Note=Localization to cilium is mediated via interaction with UNC119 and UNC119B, which bind to the myristoyl moiety of the N-terminus.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q7Z494
Gene Ontology
(Biological Process)
Complete annatation
atrial septum development [GO:0003283];
cilium assembly [GO:0060271];
convergent extension involved in gastrulation [GO:0060027];
determination of intestine left/right asymmetry [GO:0071908];
determination of left/right symmetry [GO:0007368];
determination of liver left/right asymmetry [GO:0071910];
determination of pancreatic left/right asymmetry [GO:0035469];
determination of stomach left/right asymmetry [GO:0071909];
epithelial cilium movement involved in determination of left/right asymmetry [GO:0060287];
heart looping [GO:0001947];
kidney development [GO:0001822];
kidney morphogenesis [GO:0060993];
lung development [GO:0030324];
maintenance of animal organ identity [GO:0048496];
negative regulation of canonical Wnt signaling pathway [GO:0090090];
photoreceptor cell maintenance [GO:0045494];
regulation of planar cell polarity pathway involved in neural tube closure [GO:2000167];
regulation of Wnt signaling pathway, planar cell polarity pathway [GO:2000095];
ureter development [GO:0072189];
Wnt signaling pathway [GO:0016055]
Gene Ontology
(Molecular Function)
Complete annatation
unknown
Gene Ontology
(Cellular Component)
Complete annatation
cilium [GO:0005929];
cytosol [GO:0005829];
primary cilium [GO:0072372]
Protein-protein interaction117962
Phylogenetic treeQ7Z494
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. CD3-0.8366882583660420.01143573735278420.0292069428689405
AZA vs. DISU-0.04738967195787790.8558697969798830.989951370113767
AZA vs. IL7-0.3862012854073160.04603043432899190.638415914185047
AZA vs. SAHA0.3111346946580880.2039036997772810.572035079910209
DISU vs. CD30.7759496728561650.03497254980218230.0811040331873995
DISU vs. IL7-0.3476409643688110.1706549292779950.534737696708746
DISU vs. SAHA0.3597162942808810.2208284767999640.596114270795675
DMSO vs. AZA0.02590444494726230.8777892389879041
DMSO vs. CD30.8507238513209080.008393775728429590.0214607809962201
DMSO vs. DISU0.07146819058693550.7734212443667580.971526179368758
DMSO vs. IL7-0.4048409450815920.0253253206687420.323424382108182
DMSO vs. SAHA0.2784253994105610.2388292043200960.586738642698405
HIV vs. Mock in Activation-0.02090054519808390.9732677509835060.999983755607037
HIV vs. Mock in Latency0.09210095096681310.5784700354063570.999834320637052
IL7 vs. CD30.4582489808050360.1556055141315460.266739669567246
SAHA vs. CD31.122950253343260.001695313722245180.00562244229626649
SAHA vs. IL70.693163481235460.004699222848853380.0368937943872999
(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 unknown
(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) TRUE
(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 0.293681 0.387983
(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
1.013 0.957 0.948 0.944 0.89
(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

not found

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
5L7K X-ray 2.1Å B=2-7.

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

HIV Partner Interaction Type PubMed
HIV-1 virus replication enhanced by expression of human gene 18854154

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found
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