Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000228
UniProt IDQ96RK4
Primary gene name(s)BBS4
Synonym gene name(s)unknown
Protein nameBardet-Biedl syndrome 4 protein
Protein functionThe BBSome complex is thought to function as a coat complex required for sorting of specific membrane proteins to the primary cilia. The BBSome complex is required for ciliogenesis but is dispensable for centriolar satellite function. This ciliogenic function is mediated in part by the Rab8 GDP/GTP exchange factor, which localizes to the basal body and contacts the BBSome. Rab8(GTP enters the primary cilium and promotes extension of the ciliary membrane. Firstly the BBSome associates with the ciliary membrane and binds to RAB3IP/Rabin8, the guanosyl exchange factor, GEF for Rab8 and then the Rab8-GTP localizes to the cilium and promotes docking and fusion of carrier vesicles to the base of the ciliary membrane. The BBSome complex, together with the LTZL1, controls SMO ciliary trafficking and contributes to the sonic hedgehog, SHH pathway regulation. Required for proper BBSome complex assembly and its ciliary localization. Required for microtubule anchoring at the centrosome but not for microtubule nucleation. May be required for the dynein-mediated transport of pericentriolar proteins to the centrosome. {ECO:0000269|PubMed:15107855, ECO:0000269|PubMed:17574030, ECO:0000269|PubMed:22072986}.
Subcellular locationCytoplasm, cytoskeleton, microtubule organizing center, centrosome {ECO:0000250}. Cell projection, cilium membrane {ECO:0000250}. Cytoplasm {ECO:0000250}. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome, centriolar satellite {ECO:0000250}. Cell projection, cilium, flagellum {ECO:0000250|UniProtKB:Q8C1Z7}. Cell projection, cilium {ECO:0000250|UniProtKB:Q8C1Z7}. Note=Localizes to the pericentriolar material. Centrosomal localization requires dynein, By similarity. Localizes to the connecting cilium of photoreceptor cells, By similarity. {ECO:0000250|UniProtKB:Q8C1Z7}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q96RK4
Gene Ontology
(Biological Process)
Complete annatation
adult behavior [GO:0030534];
brain morphogenesis [GO:0048854];
centrosome organization [GO:0051297];
cerebral cortex development [GO:0021987];
cilium assembly [GO:0060271];
dendrite development [GO:0016358];
face development [GO:0060324];
fat cell differentiation [GO:0045444];
fat pad development [GO:0060613];
heart looping [GO:0001947];
hippocampus development [GO:0021766];
intracellular transport [GO:0046907];
maintenance of protein location in nucleus [GO:0051457];
melanosome transport [GO:0032402];
microtubule anchoring at centrosome [GO:0034454];
microtubule cytoskeleton organization [GO:0000226];
mitotic cytokinesis [GO:0000281];
negative regulation of actin filament polymerization [GO:0030837];
negative regulation of appetite by leptin-mediated signaling pathway [GO:0038108];
negative regulation of gene expression [GO:0010629];
negative regulation of GTPase activity [GO:0034260];
negative regulation of systemic arterial blood pressure [GO:0003085];
neural tube closure [GO:0001843];
neuron migration [GO:0001764];
non-motile cilium assembly [GO:1905515];
photoreceptor cell maintenance [GO:0045494];
photoreceptor cell outer segment organization [GO:0035845];
positive regulation of cilium assembly [GO:0045724];
positive regulation of multicellular organism growth [GO:0040018];
protein localization to centrosome [GO:0071539];
protein localization to cilium [GO:0061512];
protein localization to organelle [GO:0033365];
protein localization to photoreceptor outer segment [GO:1903546];
protein transport [GO:0015031];
regulation of cilium beat frequency involved in ciliary motility [GO:0060296];
regulation of cytokinesis [GO:0032465];
regulation of lipid metabolic process [GO:0019216];
regulation of non-motile cilium assembly [GO:1902855];
regulation of stress fiber assembly [GO:0051492];
retina homeostasis [GO:0001895];
retinal rod cell development [GO:0046548];
sensory perception of smell [GO:0007608];
sensory processing [GO:0050893];
social behavior [GO:0035176];
spermatid development [GO:0007286];
striatum development [GO:0021756];
ventricular system development [GO:0021591];
visual perception [GO:0007601]
Gene Ontology
(Molecular Function)
Complete annatation
alpha-tubulin binding [GO:0043014];
beta-tubulin binding [GO:0048487];
dynactin binding [GO:0034452];
microtubule motor activity [GO:0003777];
RNA polymerase II repressing transcription factor binding [GO:0001103]
Gene Ontology
(Cellular Component)
Complete annatation
BBSome [GO:0034464];
centriolar satellite [GO:0034451];
centriole [GO:0005814];
centrosome [GO:0005813];
ciliary basal body [GO:0036064];
ciliary membrane [GO:0060170];
ciliary transition zone [GO:0035869];
cilium [GO:0005929];
cytosol [GO:0005829];
motile cilium [GO:0031514];
nonmotile primary cilium [GO:0031513];
nucleus [GO:0005634];
pericentriolar material [GO:0000242];
photoreceptor connecting cilium [GO:0032391];
photoreceptor inner segment [GO:0001917];
photoreceptor outer segment [GO:0001750]
Protein-protein interaction107060
Phylogenetic treeQ96RK4
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. CD3-0.4364352140342390.2439201720780910.355376010977379
AZA vs. DISU-0.464230209334980.07157509498994990.580564258157267
AZA vs. IL7-0.2512625735072380.2026092811982820.966350405424965
AZA vs. SAHA-0.220391654705820.3738860608157270.740307169412357
DISU vs. CD3-0.04082297245238640.9132577663030070.943488970547017
DISU vs. IL70.2032939647228470.4276999964887290.782567962989148
DISU vs. SAHA0.2460103643488730.4048458797702930.762973696343782
DMSO vs. AZA-0.1166872731762120.500209078881871
DMSO vs. CD30.3095025712457520.4064576885745810.521086297198201
DMSO vs. DISU0.3459839209456340.1630566880391930.67193445139476
DMSO vs. IL7-0.1278505167305910.4890916163518010.884322644198525
DMSO vs. SAHA-0.1098338738100980.6465102756656680.886689911184954
HIV vs. Mock in Activation0.02218998586768170.9791503979788860.999983755607037
HIV vs. Mock in Latency0.2268490611191870.1797379649552280.999834320637052
IL7 vs. CD30.1925230051819160.610540420388880.725534197139829
SAHA vs. CD30.1922870883072260.6105625067783390.706424336057548
SAHA vs. IL70.02854218301461420.908145984454220.965197248090173
(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
0.3869 0.04285

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 0.228298 0.208963
(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

not found

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
Menu