Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0007157
UniProt IDQ9UQE7
Primary gene name(s)SMC3
Synonym gene name(s)BAM, BMH, CSPG6, SMC3L1
Protein nameStructural maintenance of chromosomes protein 3
Protein functionCentral component of cohesin, a complex required for chromosome cohesion during the cell cycle. The cohesin complex may form a large proteinaceous ring within which sister chromatids can be trapped. At anaphase, the complex is cleaved and dissociates from chromatin, allowing sister chromatids to segregate. Cohesion is coupled to DNA replication and is involved in DNA repair. The cohesin complex plays also an important role in spindle pole assembly during mitosis and in chromosomes movement. {ECO:0000269|PubMed:11076961, ECO:0000269|PubMed:19907496}.
Subcellular locationNucleus. Chromosome. Chromosome, centromere. Note=Associates with chromatin. Before prophase it is scattered along chromosome arms. During prophase, most of cohesin complexes dissociate from chromatin probably because of phosphorylation by PLK, except at centromeres, where cohesin complexes remain. At anaphase, the RAD21 subunit of the cohesin complex is cleaved, leading to the dissociation of the complex from chromosomes, allowing chromosome separation. The phosphorylated form at Ser-1083 is preferentially associated with unsynapsed chromosomal regions, By similarity. {ECO:0000250}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9UQE7
Gene Ontology
(Biological Process)
Complete annatation
cell division [GO:0051301];
DNA repair [GO:0006281];
meiotic nuclear division [GO:0007126];
mitotic nuclear division [GO:0007067];
mitotic sister chromatid cohesion [GO:0007064];
mitotic spindle organization [GO:0007052];
negative regulation of DNA endoreduplication [GO:0032876];
protein sumoylation [GO:0016925];
regulation of DNA replication [GO:0006275];
signal transduction [GO:0007165];
sister chromatid cohesion [GO:0007062];
stem cell population maintenance [GO:0019827]
Gene Ontology
(Molecular Function)
Complete annatation
ATP binding [GO:0005524];
chromatin binding [GO:0003682];
dynein binding [GO:0045502];
microtubule motor activity [GO:0003777];
protein heterodimerization activity [GO:0046982]
Gene Ontology
(Cellular Component)
Complete annatation
basement membrane [GO:0005604];
chromatin [GO:0000785];
chromosome [GO:0005694];
chromosome, centromeric region [GO:0000775];
cohesin complex [GO:0008278];
cohesin core heterodimer [GO:0008280];
cytoplasm [GO:0005737];
cytosol [GO:0005829];
lateral element [GO:0000800];
meiotic cohesin complex [GO:0030893];
nuclear matrix [GO:0016363];
nuclear meiotic cohesin complex [GO:0034991];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
spindle pole [GO:0000922]
Protein-protein interaction114574
Phylogenetic treeQ9UQE7
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. CD30.6610545153965670.04570734739821410.0927063840648477
AZA vs. DISU0.03827479866447290.8797131027096040.991771899371402
AZA vs. IL70.2113496608704330.2712732749690820.999311006273513
AZA vs. SAHA0.07616770113017320.7547590167196420.933338852261449
DISU vs. CD3-0.6350880783414280.08119626807842360.158215168693661
DISU vs. IL70.1642008408456890.5140792226432620.834006523445736
DISU vs. SAHA0.03812442031929590.8961818415595260.974273716666206
DMSO vs. AZA-0.1484665521413540.3750327932097421
DMSO vs. CD3-0.8187288154241790.0114780687879380.0280527427466395
DMSO vs. DISU-0.1880400660244350.4410966530298030.884783740848831
DMSO vs. IL70.3667046434617320.04148161061455410.412762561065613
DMSO vs. SAHA0.2161308051580480.359223003994280.707963162162075
HIV vs. Mock in Activation-0.02394678775266260.9693064850710980.999983755607037
HIV vs. Mock in Latency0.06528614239348210.6921281454374520.999834320637052
IL7 vs. CD3-0.4407799640888530.171906512707090.28780927091347
SAHA vs. CD3-0.611074276569130.0886786125580210.158152271153772
SAHA vs. IL7-0.1395566344472270.5670985639552790.774808108540083
(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 0.325907 0.0229428
(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
1.031 0.978 0.893 0.836 0.954
(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

not found

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

HIV Partner Interaction Type PubMed
Vpr downregulates 21875947
Tat interacts with 19454010

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04110 Cell cycle - Homo sapiens (human)
hsa04114 Oocyte meiosis - Homo sapiens (human)
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