Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0001412
UniProt IDQ13422
Primary gene name(s)IKZF1
Synonym gene name(s)IK1, IKAROS, LYF1, ZNFN1A1
Protein nameDNA-binding protein Ikaros
Protein functionTranscription regulator of hematopoietic cell differentiation, PubMed:17934067. Binds gamma-satellite DNA, PubMed:17135265, PubMed:19141594. Plays a role in the development of lymphocytes, B- and T-cells. Binds and activates the enhancer, delta-A element of the CD3-delta gene. Repressor of the TDT, fikzfterminal deoxynucleotidyltransferase gene during thymocyte differentiation. Regulates transcription through association with both HDAC-dependent and HDAC-independent complexes. Targets the 2 chromatin-remodeling complexes, NuRD and BAF, SWI/SNF, in a single complex, PYR complex, to the beta-globin locus in adult erythrocytes. Increases normal apoptosis in adult erythroid cells. Confers early temporal competence to retinal progenitor cells, RPCs, By similarity. Function is isoform-specific and is modulated by dominant-negative inactive isoforms, PubMed:17135265, PubMed:17934067. {ECO:0000250|UniProtKB:Q03267, ECO:0000269|PubMed:10204490, ECO:0000269|PubMed:17135265, ECO:0000269|PubMed:17934067, ECO:0000269|PubMed:19141594}.
Subcellular locationNucleus {ECO:0000269|PubMed:17135265, ECO:0000269|PubMed:21548011, ECO:0000269|PubMed:22106042, ECO:0000269|PubMed:23071339}. Note=In resting lymphocytes, distributed diffusely throughout the nucleus. Localizes to pericentromeric heterochromatin in proliferating cells. This localization requires DNA binding which is regulated by phosphorylation / dephosphorylation events. {ECO:0000269|PubMed:17135265, ECO:0000269|PubMed:22106042}.;
SUBCELLULAR LOCATION: Isoform Ik2: Nucleus. Note=In resting lymphocytes, distributed diffusely throughout the nucleus. Localizes to pericentromeric heterochromatin in proliferating cells. This localization requires DNA binding which is regulated by phosphorylation / dephosphorylation events, By similarity. {ECO:0000250}.;
SUBCELLULAR LOCATION: Isoform Ik6: Cytoplasm {ECO:0000250}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q13422
Gene Ontology
(Biological Process)
Complete annatation
cell cycle [GO:0007049];
covalent chromatin modification [GO:0016569];
erythrocyte differentiation [GO:0030218];
lymphocyte differentiation [GO:0030098];
mesoderm development [GO:0007498];
negative regulation of transcription, DNA-templated [GO:0045892];
negative regulation of transcription from RNA polymerase II promoter [GO:0000122];
positive regulation of transcription from RNA polymerase II promoter [GO:0045944];
transcription, DNA-templated [GO:0006351]
Gene Ontology
(Molecular Function)
Complete annatation
DNA binding [GO:0003677];
metal ion binding [GO:0046872];
transcription factor activity, sequence-specific DNA binding [GO:0003700];
transcription regulatory region DNA binding [GO:0044212]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
nucleus [GO:0005634];
protein complex [GO:0043234]
Protein-protein interaction115604
Phylogenetic treeQ13422
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. CD3-0.6060315398828710.06474251425930160.123269223713516
AZA vs. DISU-0.1841213292324810.4655854698530290.925522269888509
AZA vs. IL70.04528201083030110.8131394124647260.999311006273513
AZA vs. SAHA-0.49940332629540.09031796784021440.378602070974247
DISU vs. CD30.4096611459882420.2590073160957850.386485476423269
DISU vs. IL70.2202479159316310.3808717443372020.751517856803656
DISU vs. SAHA-0.3137917165563450.2893533361325540.671897810653001
DMSO vs. AZA0.008987795068308060.9569902017674891
DMSO vs. CD30.6038400938880380.05981013136921010.111905053311905
DMSO vs. DISU0.1913995016633670.4315634954567190.881718877024027
DMSO vs. IL70.04351619292108810.8079500333144890.961714512363137
DMSO vs. SAHA-0.5147103622274770.07584326979306880.321890712208206
HIV vs. Mock in Activation0.3579500714328390.5649206901885630.999983755607037
HIV vs. Mock in Latency0.05534927048142940.7360108808294670.999834320637052
IL7 vs. CD30.6584418125173340.04146816590105680.0941339856365406
SAHA vs. CD30.08272116076979790.8199437054627850.8723913895315
SAHA vs. IL7-0.5478704788394020.05320670502202860.192222538939904
(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 -0.707589 0.000305467
(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
0.937 1.017 0.806 0.804 1.163
(2). Navare et al., Virology, 2012

SUP-T1 cell line
FC-4hpi P-value FC-8hpi P-value FC-20hpi P-value Category
-0.63 0.1122 -2.19 0.0176 -0.33 0.7432 DNA recombination; repair and maintenance (8hpi)
(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

HIV Partner Interaction Type PubMed
Tat interacts with 19454010

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found