Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002643
UniProt IDQ53H47
Primary gene name(s)SETMAR
Synonym gene name(s)unknown
Protein nameHistone-lysine N-methyltransferase SETMAR
Protein functionProtein derived from the fusion of a methylase with the transposase of an Hsmar1 transposon that plays a role in DNA double-strand break repair, stalled replication fork restart and DNA integration. DNA-binding protein, it is indirectly recruited to sites of DNA damage through protein-protein interactions. Has also kept a sequence-specific DNA-binding activity recognizing the 19-mer core of the 5'-terminal inverted repeats, TIRs of the Hsmar1 element and displays a DNA nicking and end joining activity, PubMed:16332963, PubMed:16672366, PubMed:17877369, PubMed:17403897, PubMed:18263876, PubMed:22231448, PubMed:24573677, PubMed:20521842. In parallel, has a histone methyltransferase activity and methylates 'Lys-4' and 'Lys-36' of histone H3. Specifically mediates dimethylation of H3 'Lys-36' at sites of DNA double-strand break and may recruit proteins required for efficient DSB repair through non-homologous end-joining, PubMed:16332963, PubMed:21187428, PubMed:22231448. Also regulates replication fork processing, promoting replication fork restart and regulating DNA decatenation through stimulation of the topoisomerase activity of TOP2A, PubMed:18790802, PubMed:20457750. {ECO:0000269|PubMed:16332963, ECO:0000269|PubMed:16672366, ECO:0000269|PubMed:17403897, ECO:0000269|PubMed:17877369, ECO:0000269|PubMed:18790802, ECO:0000269|PubMed:20457750, ECO:0000269|PubMed:20521842, ECO:0000269|PubMed:21187428, ECO:0000269|PubMed:22231448, ECO:0000269|PubMed:24573677, ECO:0000303|PubMed:18263876}.
Subcellular locationNucleus {ECO:0000269|PubMed:18263876}. Chromosome {ECO:0000269|PubMed:18790802, ECO:0000269|PubMed:22231448}. Note=Recruited on damaged DNA at sites of double-strand breaks. {ECO:0000269|PubMed:18263876}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q53H47
Gene Ontology
(Biological Process)
Complete annatation
cell proliferation [GO:0008283];
DNA catabolic process, endonucleolytic [GO:0000737];
DNA double-strand break processing [GO:0000729];
DNA integration [GO:0015074];
double-strand break repair via nonhomologous end joining [GO:0006303];
histone H3-K36 dimethylation [GO:0097676];
histone H3-K36 methylation [GO:0010452];
histone H3-K4 methylation [GO:0051568];
mitotic DNA integrity checkpoint [GO:0044774];
negative regulation of cell cycle arrest [GO:0071157];
negative regulation of chromosome organization [GO:2001251];
nucleic acid phosphodiester bond hydrolysis [GO:0090305];
positive regulation of DNA topoisomerase, ATP-hydrolyzing activity [GO:2000373];
positive regulation of double-strand break repair via nonhomologous end joining [GO:2001034];
replication fork processing [GO:0031297]
Gene Ontology
(Molecular Function)
Complete annatation
DNA topoisomerase binding [GO:0044547];
double-stranded DNA binding [GO:0003690];
endonuclease activity [GO:0004519];
histone methyltransferase activity, H3-K36 specific [GO:0046975];
histone methyltransferase activity, H3-K4 specific [GO:0042800];
protein homodimerization activity [GO:0042803];
single-stranded DNA binding [GO:0003697];
single-stranded DNA endodeoxyribonuclease activity [GO:0000014];
structure-specific DNA binding [GO:0043566];
zinc ion binding [GO:0008270]
Gene Ontology
(Cellular Component)
Complete annatation
nucleus [GO:0005634];
site of double-strand break [GO:0035861]
Protein-protein interaction112317
Phylogenetic treeQ53H47
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. CD31.543684218426324.87806219928721e-063.23601027586518e-05
AZA vs. DISU-0.2972421745325850.2572835109160290.839457065703078
AZA vs. IL70.1531459294999140.4499414127753730.999311006273513
AZA vs. SAHA-0.5585523526753650.03029905426100180.200759535793556
DISU vs. CD3-1.853801543156569.38448228127164e-079.06805678896723e-06
DISU vs. IL70.4410868882632440.09022091341375480.398266550428215
DISU vs. SAHA-0.2611941595882620.3952047596034090.757687086398203
DMSO vs. AZA-0.1143938859908510.5274002899593881
DMSO vs. CD3-1.669748727829854.52789944871412e-073.46082218137383e-06
DMSO vs. DISU0.1807237746918960.4751672364561230.898352810612693
DMSO vs. IL70.2746829058848430.1490725821184320.6511936179181
DMSO vs. SAHA-0.451388331696850.07012046114270950.30864061620379
HIV vs. Mock in Activation-0.05233304176108830.9331685059921850.999983755607037
HIV vs. Mock in Latency-0.2058168858322270.2468815114984670.999834320637052
IL7 vs. CD3-1.381943591014762.78399520399208e-050.000190481887016671
SAHA vs. CD3-2.129707785364631.12067871649302e-081.46602675846786e-07
SAHA vs. IL7-0.7170011389892360.005247075888613510.0398862440468785
(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 -0.193887 0.334724
(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
1.443 0.835 0.659 0.688 1.074
(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
3BO5 X-ray 1.5Å A=15-303.
3F2K X-ray 1.8Å A/B=459-684.
3K9J X-ray 1.9Å A/B=446-684.
3K9K X-ray 2.5Å A/B=446-684.

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
hsa00310 Lysine degradation - Homo sapiens (human)
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