Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000640
UniProt IDP09496
Primary gene name(s)CLTA
Synonym gene name(s)unknown
Protein nameClathrin light chain A
Protein functionClathrin is the major protein of the polyhedral coat of coated pits and vesicles. Acts as component of the TACC3/ch-TOG/clathrin complex proposed to contribute to stabilization of kinetochore fibers of the mitotic spindle by acting as inter-microtubule bridge, PubMed:15858577, PubMed:21297582. {ECO:0000305|PubMed:15858577, ECO:0000305|PubMed:21297582}.
Subcellular locationCytoplasmic vesicle membrane;
Peripheral membrane protein;
Cytoplasmic side. Membrane, coated pit;
Peripheral membrane protein;
Cytoplasmic side. Cytoplasm, cytoskeleton, spindle {ECO:0000269|PubMed:21297582, ECO:0000305|PubMed:15858577}. Note=Cytoplasmic face of coated pits and vesicles. In complex with TACC3 and CKAP5, forming the TACC3/ch-TOG/clathrin complex localized to inter-microtubule bridges in mitotic spindles. {ECO:0000305}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P09496
Gene Ontology
(Biological Process)
Complete annatation
antigen processing and presentation of exogenous peptide antigen via MHC class II [GO:0019886];
cell division [GO:0051301];
clathrin-dependent endocytosis [GO:0072583];
intracellular protein transport [GO:0006886];
microtubule-based movement [GO:0007018];
mitotic nuclear division [GO:0007067];
negative regulation of epidermal growth factor receptor signaling pathway [GO:0042059]
Gene Ontology
(Molecular Function)
Complete annatation
clathrin heavy chain binding [GO:0032050];
peptide binding [GO:0042277];
structural molecule activity [GO:0005198]
Gene Ontology
(Cellular Component)
Complete annatation
clathrin coat [GO:0030118];
clathrin coat of coated pit [GO:0030132];
clathrin coat of trans-Golgi network vesicle [GO:0030130];
clathrin complex [GO:0071439];
clathrin vesicle coat [GO:0030125];
cytoplasmic, membrane-bounded vesicle [GO:0016023];
cytosol [GO:0005829];
endolysosome membrane [GO:0036020];
intracellular membrane-bounded organelle [GO:0043231];
membrane [GO:0016020];
plasma membrane [GO:0005886];
trans-Golgi network membrane [GO:0032588]
Protein-protein interaction107621
Phylogenetic treeP09496
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
Brass et al., Science, 2008
Smith et al., J. Immunol, 2010
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. CD30.6205665001295250.05932537178380640.114929563435158
AZA vs. DISU-0.04264898430968690.8663445191653490.991133096247651
AZA vs. IL70.1131882928140010.5576276664583820.999311006273513
AZA vs. SAHA-0.1656861722668640.4987971718794910.820348266008337
DISU vs. CD3-0.6750322001552970.06413970726396830.131848076816727
DISU vs. IL70.1459651642129230.5630112233373580.858352972472762
DISU vs. SAHA-0.1207010185898760.6792351967630390.904055046347007
DMSO vs. AZA-0.1624704310179090.3356051475062981
DMSO vs. CD3-0.7898749129788720.01432297345806830.0337571331579786
DMSO vs. DISU-0.1206140693208150.6217595490372250.942807213654396
DMSO vs. IL70.2823385679881720.1184670393394970.609689913569753
DMSO vs. SAHA-0.01022274323529490.965520482512340.992515826706029
HIV vs. Mock in Activation0.07574526163631480.9032902182048150.999983755607037
HIV vs. Mock in Latency-0.03848729271169360.8214778235085360.999834320637052
IL7 vs. CD3-0.5014039053276380.1195703716610920.217325963107155
SAHA vs. CD3-0.8096301252931990.02350031838917220.0527244004949866
SAHA vs. IL7-0.2808008205418670.2512544093823610.494568943200536
(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 -0.0327493 0.862402
(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
1.044 0.922 0.787 0.678 0.985
(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
216295_s_at 1.68 No upregulated in CD8+ cells

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

HIV Partner Interaction Type PubMed
integrase incorporates 21289110
Nef interacts with 17581864
Pol stabilized by 21738476
matrix co-localizes with 18602423
Gag-Pol incorporates 21289110
Envelope surface glycoprotein gp120 co-localizes with 18602423
HIV-1 virus replication enhanced by expression of human gene 18854154
Vpr mediated by 21704113
reverse transcriptase incorporates 21738476
Nef complexes with 17140399

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04142 Lysosome - Homo sapiens (human)
hsa04144 Endocytosis - Homo sapiens (human)
hsa04721 Synaptic vesicle cycle - Homo sapiens (human)
hsa04961 Endocrine and other factor-regulated calcium reabsorption - Homo sapiens (human)
hsa05016 Huntington's disease - Homo sapiens (human)
hsa05100 Bacterial invasion of epithelial cells - Homo sapiens (human)