Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000625
UniProt IDP30622
Primary gene name(s)CLIP1
Synonym gene name(s)CYLN1, RSN
Protein nameCAP-Gly domain-containing linker protein 1
Protein functionBinds to the plus end of microtubules and regulates the dynamics of the microtubule cytoskeleton. Promotes microtubule growth and microtubule bundling. Links cytoplasmic vesicles to microtubules and thereby plays an important role in intracellular vesicle trafficking. Plays a role macropinocytosis and endosome trafficking. {ECO:0000269|PubMed:12433698, ECO:0000269|PubMed:17563362, ECO:0000269|PubMed:17889670}.
Subcellular locationCytoplasm {ECO:0000305}. Cytoplasm, cytoskeleton {ECO:0000269|PubMed:17889670, ECO:0000269|PubMed:21646404}. Cytoplasmic vesicle membrane {ECO:0000269|PubMed:12433698};
Peripheral membrane protein;
Cytoplasmic side. Cell projection, ruffle {ECO:0000269|PubMed:12433698}. Note=Localizes to microtubule plus ends, PubMed:21646404, PubMed:17889670. Localizes preferentially to the ends of tyrosinated microtubules, By similarity. Accumulates in plasma membrane regions with ruffling and protrusions. Associates with the membranes of intermediate macropinocytic vesicles, PubMed:12433698. {ECO:0000250|UniProtKB:Q922J3, ECO:0000269|PubMed:12433698, ECO:0000269|PubMed:17889670, ECO:0000269|PubMed:21646404}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P30622
Gene Ontology
(Biological Process)
Complete annatation
microtubule bundle formation [GO:0001578];
mitotic nuclear division [GO:0007067];
positive regulation of dendrite development [GO:1900006];
positive regulation of microtubule polymerization [GO:0031116];
protein transport into plasma membrane raft [GO:0044861];
sister chromatid cohesion [GO:0007062]
Gene Ontology
(Molecular Function)
Complete annatation
metal ion binding [GO:0046872];
microtubule binding [GO:0008017];
microtubule plus-end binding [GO:0051010];
protein homodimerization activity [GO:0042803];
tubulin binding [GO:0015631];
zinc ion binding [GO:0008270]
Gene Ontology
(Cellular Component)
Complete annatation
centrosome [GO:0005813];
cytoplasm [GO:0005737];
cytoplasmic microtubule [GO:0005881];
cytoplasmic vesicle membrane [GO:0030659];
cytosol [GO:0005829];
endosome [GO:0005768];
intermediate filament [GO:0005882];
kinetochore [GO:0000776];
microtubule [GO:0005874];
microtubule cytoskeleton [GO:0015630];
microtubule end [GO:1990752];
microtubule plus-end [GO:0035371];
ruffle [GO:0001726]
Protein-protein interaction112163
Phylogenetic treeP30622
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. CD3-0.583725231681150.07583524653493330.140072161246877
AZA vs. DISU-0.04362122539325660.8635071560223450.991133096247651
AZA vs. IL70.1273411536463920.5073318550448190.999311006273513
AZA vs. SAHA-0.4981754838503680.04221857484415910.243110133787031
DISU vs. CD30.5280642406372150.1458965841492730.250454972038053
DISU vs. IL70.1620830871812320.5205104259888920.837516775726603
DISU vs. SAHA-0.4538005199609010.1197394253489480.443860345441039
DMSO vs. AZA-0.04675405000965320.7799291908104521
DMSO vs. CD30.5254049317897090.1013504395613020.172778586849725
DMSO vs. DISU-0.005011306258844570.9836516430246480.997414348563202
DMSO vs. IL70.1813492365827170.3127136515493110.794927335132587
DMSO vs. SAHA-0.4585269702219760.05274561103790630.260703626499574
HIV vs. Mock in Activation0.02878055155781380.9632715112093030.999983755607037
HIV vs. Mock in Latency-0.07149686708912870.6646730165507660.999834320637052
IL7 vs. CD30.7193448955132130.02577961735906780.0641956339754218
SAHA vs. CD30.0603227951137680.8643115740869630.904400459761876
SAHA vs. IL7-0.6293642873806410.01009239913355130.0629428318325
(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 0.261082 0.135685
(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
0.99 1.189 1.091 1.208 1.222
(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
2CP5 NMR - A=1-128.
2CP6 NMR - A=181-339.
2E3H X-ray 1.4Å A=211-300.
2E3I X-ray 2.0Å A=56-141.
2E4H NMR - A=203-300.
2HQH X-ray 1.8Å E/F/G/H=1416-1438.
2QK0 X-ray 2.0Å A=57-128.
3E2U X-ray 2.6Å E/F/G/H=1399-1438.
3RDV X-ray 1.7Å A/B/C/D=56-127.

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
hsa04150 mTOR signaling pathway - Homo sapiens (human)
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