Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002533
UniProt IDQ68CZ1
Primary gene name(s)RPGRIP1L
Synonym gene name(s)FTM, KIAA1005, NPHP8
Protein nameProtein fantom
Protein functionNegatively regulates signaling through the G-protein coupled thromboxane A2 receptor, TBXA2R, PubMed:19464661. May be involved in mechanisms like programmed cell death, craniofacial development, patterning of the limbs, and formation of the left-right axis, By similarity. Involved in the organization of apical junctions; the function is proposed to implicate a NPHP1-4-8 module. Does not seem to be strictly required for ciliogenesis, PubMed:19464661. Involved in establishment of planar cell polarity such as in cochlear sensory epithelium and is proposed to implicate stabilization of disheveled proteins, By similarity. Involved in regulation of proteasomal activity at the primary cilium probably implicating association with PSDM2, By similarity. {ECO:0000250|UniProtKB:Q8CG73, ECO:0000269|PubMed:19464661}.
Subcellular locationCytoplasm. Cytoplasm, cytoskeleton, cilium basal body {ECO:0000250|UniProtKB:Q8CG73, ECO:0000269|PubMed:21685204}. Cytoplasm, cytoskeleton, cilium axoneme. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome {ECO:0000250|UniProtKB:Q8CG73}. Cell junction, tight junction {ECO:0000250|UniProtKB:Q8CG73}. Note=In cultured renal cells, it localizes diffusely in the cytoplasm but, as cells approach confluence, it accumulates to basolateral tight junctions. Localizes to the ciliary transition zone. {ECO:0000250|UniProtKB:Q8CG73}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q68CZ1
Gene Ontology
(Biological Process)
Complete annatation
camera-type eye development [GO:0043010];
cerebellum development [GO:0021549];
cilium assembly [GO:0060271];
cochlea development [GO:0090102];
corpus callosum development [GO:0022038];
determination of left/right symmetry [GO:0007368];
embryonic forelimb morphogenesis [GO:0035115];
embryonic hindlimb morphogenesis [GO:0035116];
establishment of planar polarity [GO:0001736];
establishment or maintenance of cell polarity [GO:0007163];
in utero embryonic development [GO:0001701];
kidney development [GO:0001822];
lateral ventricle development [GO:0021670];
liver development [GO:0001889];
negative regulation of G-protein coupled receptor protein signaling pathway [GO:0045744];
neural tube patterning [GO:0021532];
nose development [GO:0043584];
olfactory bulb development [GO:0021772];
pericardium development [GO:0060039];
regulation of smoothened signaling pathway [GO:0008589]
Gene Ontology
(Molecular Function)
Complete annatation
thromboxane A2 receptor binding [GO:0031870]
Gene Ontology
(Cellular Component)
Complete annatation
axoneme [GO:0005930];
bicellular tight junction [GO:0005923];
cell-cell junction [GO:0005911];
centrosome [GO:0005813];
ciliary basal body [GO:0036064];
ciliary transition zone [GO:0035869];
cilium [GO:0005929];
cytoplasm [GO:0005737];
cytosol [GO:0005829]
Protein-protein interaction116911
Phylogenetic treeQ68CZ1
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      unknown
Brass et al., Science, 2008
      unknown
Smith et al., J. Immunol, 2010
      Negatively associated
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. CD30.8788356569738350.00842535955156520.0225997863341796
AZA vs. DISU-0.460571388274840.07906271796394380.597337661502914
AZA vs. IL70.2871354989184630.154845921024170.922020841096286
AZA vs. SAHA0.5201079435146850.03886258016737280.232472974928564
DISU vs. CD3-1.351724854568150.0002905613507878660.00143556925656384
DISU vs. IL70.738945507624430.004683048626703550.0726482332092033
DISU vs. SAHA0.9815612341473370.001057149470184430.0217224371339823
DMSO vs. AZA-0.03788232116313520.8331635944599561
DMSO vs. CD3-0.9276119811593940.004429591812110.0123783714801404
DMSO vs. DISU0.4208002062851680.09597772362128840.561569786929451
DMSO vs. IL70.3316192563259890.07983172923257140.530861631310549
DMSO vs. SAHA0.5504822402904540.02351083883535620.157761287661466
HIV vs. Mock in Activation-0.09482400031887460.8797229373502020.999983755607037
HIV vs. Mock in Latency-0.1675082786465320.3413990056057320.999834320637052
IL7 vs. CD3-0.5817155090137820.07377483269665190.14972506439163
SAHA vs. CD3-0.3842976337600710.2828159361796440.396185264709338
SAHA vs. IL70.2289485374482260.3608219844786210.611676854929233
(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) 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 -0.0388927 0.956888
(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

not found

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
2YRB NMR - A=595-737.

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

not found

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found
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