Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002767
UniProt IDO60264
Primary gene name(s)SMARCA5
Synonym gene name(s)SNF2H, WCRF135
Protein nameSWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5
Protein functionHelicase that possesses intrinsic ATP-dependent nucleosome-remodeling activity. Complexes containing SMARCA5 are capable of forming ordered nucleosome arrays on chromatin; this may require intact histone H4 tails. Also required for replication of pericentric heterochromatin in S-phase specifically in conjunction with BAZ1A. Probably plays a role in repression of polI dependent transcription of the rDNA locus, through the recruitment of the SIN3/HDAC1 corepressor complex to the rDNA promoter. Essential component of the WICH complex, a chromatin remodeling complex that mobilizes nucleosomes and reconfigures irregular chromatin to a regular nucleosomal array structure. The WICH complex regulates the transcription of various genes, has a role in RNA polymerase I and RNA polymerase III transcription, mediates the histone H2AX phosphorylation at 'Tyr-142', and is involved in the maintenance of chromatin structures during DNA replication processes. Essential component of the NoRC, nucleolar remodeling complex complex, a complex that mediates silencing of a fraction of rDNA by recruiting histone-modifying enzymes and DNA methyltransferases, leading to heterochromatin formation and transcriptional silencing. {ECO:0000269|PubMed:10880450, ECO:0000269|PubMed:11980720, ECO:0000269|PubMed:12198550, ECO:0000269|PubMed:12434153, ECO:0000269|PubMed:12972596, ECO:0000269|PubMed:15543136, ECO:0000269|PubMed:16603771}.
Subcellular locationNucleus {ECO:0000255|PROSITE-ProRule:PRU00624, ECO:0000269|PubMed:12434153}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: O60264
Gene Ontology
(Biological Process)
Complete annatation
ATP-dependent chromatin remodeling [GO:0043044];
CENP-A containing nucleosome assembly [GO:0034080];
chromatin remodeling [GO:0006338];
chromatin silencing at rDNA [GO:0000183];
covalent chromatin modification [GO:0016569];
DNA-templated transcription, initiation [GO:0006352];
double-strand break repair [GO:0006302];
nucleosome assembly [GO:0006334];
nucleosome positioning [GO:0016584];
positive regulation of gene expression, epigenetic [GO:0045815];
positive regulation of transcription, DNA-templated [GO:0045893];
regulation of transcription from RNA polymerase II promoter [GO:0006357]
Gene Ontology
(Molecular Function)
Complete annatation
ATPase activity [GO:0016887];
ATP binding [GO:0005524];
DNA binding [GO:0003677];
helicase activity [GO:0004386]
Gene Ontology
(Cellular Component)
Complete annatation
chromatin silencing complex [GO:0005677];
condensed chromosome [GO:0000793];
nucleolus [GO:0005730];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
NURF complex [GO:0016589];
RSF complex [GO:0031213]
Protein-protein interaction114045
Phylogenetic treeO60264
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. CD30.6209091666667620.05995372282160280.115878752291254
AZA vs. DISU0.01642946624547760.9481159041403340.996442780563503
AZA vs. IL70.1877670553195590.3277109777683560.999311006273513
AZA vs. SAHA0.01827586847603650.9402515557116450.987080584759536
DISU vs. CD3-0.6165999952605030.09091340844139370.17296841080974
DISU vs. IL70.1624916003870170.5181638130958550.835624786176853
DISU vs. SAHA0.002193194826988290.993995859044690.999572425883731
DMSO vs. AZA-0.151235956947180.3654784067713081
DMSO vs. CD3-0.7812356851252950.01551833849896360.036133503784681
DMSO vs. DISU-0.1689472480934970.4879709246457570.904230103543003
DMSO vs. IL70.3459966989603820.05401173162073110.457571596136741
DMSO vs. SAHA0.1613008141171730.4939336298404120.810724649893797
HIV vs. Mock in Activation-0.0690155283582880.9117417429137710.999983755607037
HIV vs. Mock in Latency0.02451818650194820.8816289057354620.999834320637052
IL7 vs. CD3-0.4243269476381030.1884007455868420.308033890685592
SAHA vs. CD3-0.628253783070710.08005541250409020.145599211493681
SAHA vs. IL7-0.1735961186867050.4762510646944230.709388196561634
(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 0.155081 0.291751
(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
0.962 0.959 0.911 0.85 0.987
(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
DB02670 4-Deoxy-Alpha-D-Glucose experimental unknown unknown
DB02379 Beta-D-Glucose experimental unknown unknown

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
Vpr binds 21519849
Tat interacts with 19454010

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found