Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0006705
UniProt IDQ9NW64
Primary gene name(s)RBM22
Synonym gene name(s)ZC3H16
Protein namePre-mRNA-splicing factor RBM22
Protein functionInvolved in the first step of pre-mRNA splicing. Binds directly to the internal stem-loop, ISL domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic phases of the spliceosome cycle. Involved in both translocations of the nuclear SLU7 to the cytoplasm and the cytosolic calcium-binding protein PDCD6 to the nucleus upon cellular stress responses. {ECO:0000269|PubMed:17045351, ECO:0000269|PubMed:21122810, ECO:0000269|PubMed:22246180}.
Subcellular locationNucleus. Cytoplasm. Note=Mainly located in the nucleus. Translocated from the nucleus to the cytoplasm after heat shock cell treatment. May be shuttling between the nucleus and the cytosol.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9NW64
Gene Ontology
(Biological Process)
Complete annatation
cellular response to drug [GO:0035690];
mRNA cis splicing, via spliceosome [GO:0045292];
mRNA splicing, via spliceosome [GO:0000398];
positive regulation of intracellular protein transport [GO:0090316];
positive regulation of RNA splicing [GO:0033120];
protein import into nucleus, translocation [GO:0000060];
spliceosomal snRNP assembly [GO:0000387]
Gene Ontology
(Molecular Function)
Complete annatation
calcium-dependent protein binding [GO:0048306];
metal ion binding [GO:0046872];
nucleocytoplasmic transporter activity [GO:0005487];
nucleotide binding [GO:0000166];
poly(A RNA binding [GO:0044822];
pre-mRNA binding [GO:0036002];
U6 snRNA binding [GO:0017070]
Gene Ontology
(Cellular Component)
Complete annatation
catalytic step 2 spliceosome [GO:0071013];
cytoplasm [GO:0005737];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
Prp19 complex [GO:0000974];
U2-type catalytic step 1 spliceosome [GO:0071006];
U2-type catalytic step 2 spliceosome [GO:0071007]
Protein-protein interaction120821
Phylogenetic treeQ9NW64
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. CD30.3858733587439590.239054802063130.350115049722621
AZA vs. DISU0.294294527672710.2453165948355450.828290719279395
AZA vs. IL7-0.05743373340977490.7656192560054180.999311006273513
AZA vs. SAHA-0.5980907288240250.01534324060158470.129260075053895
DISU vs. CD3-0.1044171373582960.7733829605250670.843436170377287
DISU vs. IL7-0.3608092595531140.1527843801833640.507840368746006
DISU vs. SAHA-0.8907905457149180.002495767654525860.0399401355508131
DMSO vs. AZA0.001051206284958030.9950084731135761
DMSO vs. CD3-0.3963606651989960.2155387019435390.317160631449444
DMSO vs. DISU-0.2950328362243140.2273261879172590.739762409117508
DMSO vs. IL7-0.05119399989380960.7763443418540880.953977091086597
DMSO vs. SAHA-0.6052784140736830.01117678816850350.0968633550819533
HIV vs. Mock in Activation0.1058142257532950.8649068076433890.999983755607037
HIV vs. Mock in Latency0.002708754779590290.9869306109556320.999834320637052
IL7 vs. CD3-0.436255772008230.175086247902710.291707197373444
SAHA vs. CD3-1.008024630099960.005051976149186180.0144055403156548
SAHA vs. IL7-0.5437995071443890.02705339898055140.122091284336635
(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 0.0495944 0.788418
(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
1.054 0.957 0.863 0.767 0.937
(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
2YTC NMR - A=227-304.

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
hsa03040 Spliceosome - Homo sapiens (human)