Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000182
UniProt IDQ7Z3C6
Primary gene name(s)ATG9A
Synonym gene name(s)APG9L1
Protein nameAutophagy-related protein 9A
Protein functionInvolved in autophagy and cytoplasm to vacuole transport, Cvt vesicle formation. Plays a key role in the organization of the preautophagosomal structure/phagophore assembly site, PAS, the nucleating site for formation of the sequestering vesicle. Cycles between a juxta-nuclear trans-Golgi network compartment and late endosomes. Nutrient starvation induces accumulation on autophagosomes. Starvation-dependent trafficking requires ULK1, ATG13 and SUPT20H. {ECO:0000269|PubMed:16940348}.
Subcellular locationCytoplasmic vesicle, autophagosome membrane;
Multi-pass membrane protein. Golgi apparatus, trans-Golgi network membrane;
Multi-pass membrane protein. Late endosome membrane;
Multi-pass membrane protein. Endoplasmic reticulum membrane;
Multi-pass membrane protein. Note=Under amino acid starvation or rapamycin treatment, redistributes from a juxtanuclear clustered pool to a dispersed peripheral cytosolic pool. The starvation-induced redistribution depends on ULK1, ATG13, as well as SH3GLB1.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q7Z3C6
Gene Ontology
(Biological Process)
Complete annatation
autophagosome assembly [GO:0000045];
late nucleophagy [GO:0044805];
mitophagy [GO:0000422];
piecemeal microautophagy of nucleus [GO:0034727];
protein localization to pre-autophagosomal structure [GO:0034497];
protein transport [GO:0015031]
Gene Ontology
(Molecular Function)
Complete annatation
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasmic vesicle [GO:0031410];
endoplasmic reticulum membrane [GO:0005789];
endosome [GO:0005768];
integral component of membrane [GO:0016021];
late endosome [GO:0005770];
late endosome membrane [GO:0031902];
membrane [GO:0016020];
pre-autophagosomal structure [GO:0000407];
recycling endosome [GO:0055037];
trans-Golgi network [GO:0005802]
Protein-protein interaction122518
Phylogenetic treeQ7Z3C6
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. CD3-0.4365595197210350.1846348387370260.286563308561883
AZA vs. DISU0.6366795541891930.01219079046549950.269574349107028
AZA vs. IL7-0.2642974841526570.1709199062830730.941150532286992
AZA vs. SAHA0.1360668085828150.5777143868693640.859925611500819
DISU vs. CD31.059579294801330.003963134318169190.0133766875754775
DISU vs. IL7-0.9102423494388410.0003410699711454690.0132294305760863
DISU vs. SAHA-0.4978527294209440.08815366440214790.378724024003641
DMSO vs. AZA0.08571791143436350.6102135993442731
DMSO vs. CD30.5070730828609870.1145245604032530.19047389075679
DMSO vs. DISU-0.5537744781891060.02367670463061740.315201359349298
DMSO vs. IL7-0.3421199517205680.05814950078964990.467701055378083
DMSO vs. SAHA0.04596038150894130.8457112524242130.959262006870273
HIV vs. Mock in Activation0.1156634267874760.852578548887860.999983755607037
HIV vs. Mock in Latency-0.06807774059749730.6810281100307710.999834320637052
IL7 vs. CD30.1782859013481780.5798020600787290.699708282751536
SAHA vs. CD30.5490848770624350.1236726496167210.206532228471186
SAHA vs. IL70.3973077136046070.1042346468073220.294956460667087
(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 -0.00112342 0.995325
(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
0.975 1.064 1.485 1.592 1.098
(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