Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0006632
UniProt IDP20339
Primary gene name(s)RAB5A
Synonym gene name(s)RAB5
Protein nameRas-related protein Rab-5A
Protein functionThe small GTPases Rab are key regulators of intracellular membrane trafficking, from the formation of transport vesicles to their fusion with membranes. Rabs cycle between an inactive GDP-bound form and an active GTP-bound form that is able to recruit to membranes different sets of downstream effectors directly responsible for vesicle formation, movement, tethering and fusion. RAB5A is required for the fusion of plasma membranes and early endosomes, PubMed:10818110, PubMed:14617813, PubMed:16410077, PubMed:15378032. Contributes to the regulation of filopodia extension, PubMed:14978216. Required for the exosomal release of SDCBP, CD63, PDCD6IP and syndecan, PubMed:22660413. Regulates maturation of apoptotic cell-containing phagosomes, probably downstream of DYN2 and PIK3C3, By similarity. {ECO:0000250|UniProtKB:Q9CQD1, ECO:0000269|PubMed:10818110, ECO:0000269|PubMed:14617813, ECO:0000269|PubMed:14978216, ECO:0000269|PubMed:15378032, ECO:0000269|PubMed:16410077, ECO:0000269|PubMed:22660413}.
Subcellular locationCell membrane {ECO:0000269|PubMed:23815289};
Lipid-anchor {ECO:0000305|PubMed:7991565};
Cytoplasmic side {ECO:0000250|UniProtKB:P18066}. Early endosome membrane {ECO:0000269|PubMed:23815289, ECO:0000269|PubMed:25869668};
Lipid-anchor {ECO:0000305|PubMed:7991565}. Melanosome {ECO:0000269|PubMed:17081065}. Cytoplasmic vesicle {ECO:0000269|PubMed:10818110}. Cell projection, ruffle {ECO:0000250|UniProtKB:P18066}. Membrane {ECO:0000269|PubMed:23815289}. Cytoplasm, cytosol. Cytoplasmic vesicle, phagosome membrane {ECO:0000250|UniProtKB:Q9CQD1}. Endosome membrane {ECO:0000269|PubMed:22431521}. Note=Enriched in stage I melanosomes, PubMed:17081065. Alternates between membrane-bound and cytosolic forms, Probable. {ECO:0000269|PubMed:17081065, ECO:0000305}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P20339
Gene Ontology
(Biological Process)
Complete annatation
blood coagulation [GO:0007596];
early endosome to late endosome transport [GO:0045022];
endocytosis [GO:0006897];
phagocytosis [GO:0006909];
positive regulation of exocytosis [GO:0045921];
protein transport [GO:0015031];
receptor internalization involved in canonical Wnt signaling pathway [GO:2000286];
regulation of autophagosome assembly [GO:2000785];
regulation of endocytosis [GO:0030100];
regulation of endosome size [GO:0051036];
regulation of filopodium assembly [GO:0051489];
regulation of synaptic vesicle exocytosis [GO:2000300];
small GTPase mediated signal transduction [GO:0007264];
synaptic vesicle recycling [GO:0036465];
viral RNA genome replication [GO:0039694]
Gene Ontology
(Molecular Function)
Complete annatation
GDP binding [GO:0019003];
GTPase activity [GO:0003924];
GTP binding [GO:0005525]
Gene Ontology
(Cellular Component)
Complete annatation
actin cytoskeleton [GO:0015629];
axon [GO:0030424];
axon terminus [GO:0043679];
cytoplasm [GO:0005737];
cytoplasmic side of early endosome membrane [GO:0098559];
cytosol [GO:0005829];
dendrite [GO:0030425];
early endosome [GO:0005769];
endocytic vesicle [GO:0030139];
endosome [GO:0005768];
endosome membrane [GO:0010008];
extracellular exosome [GO:0070062];
melanosome [GO:0042470];
membrane raft [GO:0045121];
neuronal cell body [GO:0043025];
phagocytic vesicle [GO:0045335];
plasma membrane [GO:0005886];
ruffle [GO:0001726];
somatodendritic compartment [GO:0036477];
synaptic vesicle [GO:0008021];
terminal bouton [GO:0043195]
Protein-protein interaction111806
Phylogenetic treeP20339
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. CD30.272564145625520.4052553651139980.526961854560872
AZA vs. DISU0.2252724914208230.3745956370097180.89822839898246
AZA vs. IL70.1128630806750580.5578290087065490.999311006273513
AZA vs. SAHA0.2232337430896970.361871460273820.730030491032622
DISU vs. CD3-0.05978541719471380.8693987464296030.911884301651875
DISU vs. IL7-0.1215848821317520.6298347053262890.889522033239068
DISU vs. SAHA-0.0004677271128000440.9987372396711280.999735915229582
DMSO vs. AZA-0.09030363106398360.5909746069494231
DMSO vs. CD3-0.3723546176649640.2446469275480830.349644812020859
DMSO vs. DISU-0.3168861607249480.195541335659130.713270904924328
DMSO vs. IL70.2100731179732620.2437177093217390.747482727810414
DMSO vs. SAHA0.3066534689353950.1952412200649340.532768500379979
HIV vs. Mock in Activation-0.3619928116572150.562300441953690.999983755607037
HIV vs. Mock in Latency0.01778917059586460.9143729611714580.999834320637052
IL7 vs. CD3-0.1519633665287260.6362395712016440.74694595036392
SAHA vs. CD3-0.07358006657747150.8351118937644350.883957083971753
SAHA vs. IL70.1074500828606890.6605132327839860.835844230270803
(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) unknown
(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 0.0619494 0.729943
(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
1.103 1.093 1.102 1.115 1.017
(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

Drugbank ID Drug Name Drug Status Pharmacological Action Drug Action
DB04137 Guanosine-5&,39;-Triphosphate experimental unknown unknown
DB02467 L-methionine (S)-S-oxide experimental unknown unknown
DB04315 Guanosine-5&,39;-Diphosphate experimental unknown unknown

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
1N6H X-ray 1.5Å A=15-184.
1N6I X-ray 1.6Å A=15-184.
1N6K X-ray 1.5Å A=15-184.
1N6L X-ray 1.6Å A=15-184.
1N6N X-ray 1.6Å A=15-184.
1N6O X-ray 1.8Å A=15-184.
1N6P X-ray 1.5Å A=15-184.
1N6R X-ray 1.5Å A=15-184.
1R2Q X-ray 1.0Å A=15-184.
1TU3 X-ray 2.3Å A/B/C/D/E=15-184.
1TU4 X-ray 2.2Å A/B/C/D=15-184.
3MJH X-ray 2.0Å A/C=16-183.
4Q9U X-ray 4.6Å B/F=15-184.

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

HIV Partner Interaction Type PubMed
Nef interacts with 25915798
Nef regulated by 19620308
Nef requires 25496667
Nef localizes with 26061722

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04014 Ras signaling pathway - Homo sapiens (human)
hsa04144 Endocytosis - Homo sapiens (human)
hsa04145 Phagosome - Homo sapiens (human)
hsa04962 Vasopressin-regulated water reabsorption - Homo sapiens (human)
hsa05014 Amyotrophic lateral sclerosis (ALS) - Homo sapiens (human)
hsa05146 Amoebiasis - Homo sapiens (human)
hsa05152 Tuberculosis - Homo sapiens (human)
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