Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000921
UniProt IDP55884
Primary gene name(s)EIF3B
Synonym gene name(s)EIF3S9
Protein nameEukaryotic translation initiation factor 3 subunit B
Protein functionRNA-binding component of the eukaryotic translation initiation factor 3, eIF-3 complex, which is required for several steps in the initiation of protein synthesis, PubMed:9388245, PubMed:17581632, PubMed:25849773, PubMed:27462815. The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF-2:GTP:methionyl-tRNAi and eIF-5 to form the 43S pre-initiation complex, 43S PIC. The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of post-termination ribosomal complexes and subsequently prevents premature joining of the 40S and 60S ribosomal subunits prior to initiation, PubMed:9388245, PubMed:17581632. The eIF-3 complex specifically targets and initiates translation of a subset of mRNAs involved in cell proliferation, including cell cycling, differentiation and apoptosis, and uses different modes of RNA stem-loop binding to exert either translational activation or repression, PubMed:25849773. {ECO:0000255|HAMAP-Rule:MF_03001, ECO:0000269|PubMed:17581632, ECO:0000269|PubMed:25849773, ECO:0000269|PubMed:27462815, ECO:0000269|PubMed:9388245}.; FUNCTION:, Microbial infection In case of FCV infection, plays a role in the ribosomal termination-reinitiation event leading to the translation of VP2, PubMed:18056426. {ECO:0000269|PubMed:18056426}.
Subcellular locationCytoplasm {ECO:0000255|HAMAP-Rule:MF_03001}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P55884
Gene Ontology
(Biological Process)
Complete annatation
formation of translation preinitiation complex [GO:0001731];
IRES-dependent viral translational initiation [GO:0075522];
regulation of translational initiation [GO:0006446];
translational initiation [GO:0006413];
viral translational termination-reinitiation [GO:0075525]
Gene Ontology
(Molecular Function)
Complete annatation
nucleotide binding [GO:0000166];
protein complex scaffold [GO:0032947];
translation initiation factor activity [GO:0003743]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
cytosol [GO:0005829];
eukaryotic 43S preinitiation complex [GO:0016282];
eukaryotic 48S preinitiation complex [GO:0033290];
eukaryotic translation initiation factor 3 complex [GO:0005852];
eukaryotic translation initiation factor 3 complex, eIF3m [GO:0071541];
extracellular exosome [GO:0070062];
nucleoplasm [GO:0005654]
Protein-protein interaction114211
Phylogenetic treeP55884
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. CD31.266835747078860.0001438349474423010.000665198014068842
AZA vs. DISU0.009550364120696980.9698302755830050.997285288974472
AZA vs. IL70.2192254372851110.2533725279276160.999311006273513
AZA vs. SAHA-0.2381895111403280.3284790733841320.700118992454964
DISU vs. CD3-1.269957021471170.0005722175475968430.00256104730180368
DISU vs. IL70.2005119901039750.4253694985478870.781148153320672
DISU vs. SAHA-0.2458290745122860.3986395705309790.759369039694218
DMSO vs. AZA0.02819158696581630.8660662050123781
DMSO vs. CD3-1.250504360676150.0001241609656837950.000545649051349583
DMSO vs. DISU0.01662675631361750.9455891010053580.992938081932553
DMSO vs. IL70.1985189455543610.2688333409364220.767539423873874
DMSO vs. SAHA-0.2723737285732090.2475149403116650.595385436306534
HIV vs. Mock in Activation0.06111243903130240.9218094226010490.999983755607037
HIV vs. Mock in Latency-0.02310434423558870.8884168601212820.999834320637052
IL7 vs. CD3-1.040704231134830.001370732767190130.00556901752017704
SAHA vs. CD3-1.529048892087792.48529935487074e-050.000140908432196772
SAHA vs. IL7-0.4604840256927210.05882712249441550.204178091674651
(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 -1.116056297
(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 0.288909 0.0339263
(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
0.98 0.915 0.827 0.689 0.89
(2). Navare et al., Virology, 2012

SUP-T1 cell line
FC-4hpi P-value FC-8hpi P-value FC-20hpi P-value Category
-0.53 0.0307 -0.03 0.4658 0.07 0.7718 Protein Synthesis at 4; 8; and 20 hip
(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
2KRB NMR - A=184-264.
2NLW NMR - A=170-274.
5K1H EM 4.9Å B=170-745.

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

HIV Partner Interaction Type PubMed
Pr55(Gag) co-localizes with 25229650
Pol interacts with 22190034
retropepsin interacts with 22190034

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03013 RNA transport - Homo sapiens (human)