Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0006612
UniProt IDQ15907
Primary gene name(s)RAB11B
Synonym gene name(s)YPT3
Protein nameRas-related protein Rab-11B
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 set of downstream effectors directly responsible for vesicle formation, movement, tethering and fusion. That Rab plays a role in endocytic recycling, regulating apical recycling of several transmembrane proteins including cystic fibrosis transmembrane conductance regulator/CFTR, epithelial sodium channel/ENaC, potassium voltage-gated channel, and voltage-dependent L-type calcium channel. May also regulate constitutive and regulated secretion, like insulin granule exocytosis. Required for melanosome transport and release from melanocytes. Also regulates V-ATPase intracellular transport in response to extracellular acidosis. {ECO:0000269|PubMed:14627637, ECO:0000269|PubMed:19029296, ECO:0000269|PubMed:19244346, ECO:0000269|PubMed:20717956, ECO:0000269|PubMed:21248079, ECO:0000269|PubMed:22129970}.
Subcellular locationRecycling endosome membrane {ECO:0000250};
Lipid-anchor {ECO:0000250};
Cytoplasmic side {ECO:0000250}. Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane {ECO:0000250};
Lipid-anchor {ECO:0000250};
Cytoplasmic side {ECO:0000250}. Cytoplasmic vesicle, phagosome membrane {ECO:0000305|PubMed:21255211};
Lipid-anchor {ECO:0000305|PubMed:21255211};
Cytoplasmic side {ECO:0000305|PubMed:21255211}. Note=Recruited to phagosomes containing S.aureus.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q15907
Gene Ontology
(Biological Process)
Complete annatation
cellular response to acidic pH [GO:0071468];
constitutive secretory pathway [GO:0045054];
establishment of protein localization to membrane [GO:0090150];
insulin secretion involved in cellular response to glucose stimulus [GO:0035773];
melanosome transport [GO:0032402];
receptor recycling [GO:0001881];
regulated exocytosis [GO:0045055];
regulation of anion transport [GO:0044070];
regulation of endocytic recycling [GO:2001135];
regulation of protein localization to cell surface [GO:2000008];
retrograde transport, endosome to plasma membrane [GO:1990126];
small GTPase mediated signal transduction [GO:0007264];
transferrin transport [GO:0033572]
Gene Ontology
(Molecular Function)
Complete annatation
GDP binding [GO:0019003];
GTPase activity [GO:0003924];
GTP binding [GO:0005525];
myosin V binding [GO:0031489]
Gene Ontology
(Cellular Component)
Complete annatation
aggresome [GO:0016235];
cell junction [GO:0030054];
extracellular exosome [GO:0070062];
microtubule organizing center [GO:0005815];
mitochondrion [GO:0005739];
phagocytic vesicle [GO:0045335];
phagocytic vesicle membrane [GO:0030670];
plasma membrane [GO:0005886];
recycling endosome [GO:0055037];
recycling endosome membrane [GO:0055038];
synaptic vesicle [GO:0008021];
synaptic vesicle membrane [GO:0030672]
Protein-protein interaction114661
Phylogenetic treeQ15907
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. CD3-0.8213312645256830.01283397215735030.032272828461608
AZA vs. DISU-0.1979572185739030.4693432512639690.926047745875375
AZA vs. IL7-0.2409867542267980.2691432900048440.999311006273513
AZA vs. SAHA-1.507726040481750.01673924443584180.136540784970714
DISU vs. CD30.6117578083575120.09475724685901830.178560265205037
DISU vs. IL7-0.05310411388172720.8522325377892760.970490609807811
DISU vs. SAHA-1.306781483690320.04173465718235850.251882897300585
DMSO vs. AZA-0.08584161009713880.637766057658271
DMSO vs. CD30.7261069290282610.02433715554533890.0527310870545851
DMSO vs. DISU0.1107579160304960.6725133715387690.95498935710817
DMSO vs. IL7-0.1479065137543130.4647501832303120.87615725294193
DMSO vs. SAHA-1.426963373912520.02100957372778620.146251864042248
HIV vs. Mock in Activation0.4941708743372190.4323709459403650.999983755607037
HIV vs. Mock in Latency0.0652361149622610.6940441531934590.999834320637052
IL7 vs. CD30.5846253439454310.07144402832159240.145918135351133
SAHA vs. CD3-0.7083343821640980.2733392265957920.385622743381257
SAHA vs. IL7-1.268395815286690.04091752970645410.159876381756325
(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 -1.01233 0.317779
(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
1.026 0.996 1.1 1.165 1.038
(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
2F9L X-ray 1.5Å A=8-205.
2F9M X-ray 1.9Å A=8-205.
4OJK X-ray 2.6Å A/B=8-205.

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

HIV Partner Interaction Type PubMed
Nef co-localizes with 15569681
Nef inhibited by 20622010

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04144 Endocytosis - Homo sapiens (human)
hsa04152 AMPK signaling pathway - Homo sapiens (human)
hsa04962 Vasopressin-regulated water reabsorption - Homo sapiens (human)