Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0001947
UniProt IDP55769
Primary gene name(s)SNU13
Synonym gene name(s)NHP2L1
Protein nameNHP2-like protein 1
Protein functionBinds to the 5'-stem-loop of U4 snRNA and may play a role in the late stage of spliceosome assembly. The protein undergoes a conformational change upon RNA-binding. {ECO:0000269|PubMed:10545122, ECO:0000269|PubMed:17412961}.
Subcellular locationNucleus, nucleolus {ECO:0000269|PubMed:10593953, ECO:0000269|PubMed:12429849, ECO:0000269|Ref.7}. Note=Concentrated in the dense fibrillar component of the nucleolus.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P55769
Gene Ontology
(Biological Process)
Complete annatation
maturation of LSU-rRNA [GO:0000470];
maturation of SSU-rRNA [GO:0030490];
mRNA splicing, via spliceosome [GO:0000398];
rRNA processing [GO:0006364]
Gene Ontology
(Molecular Function)
Complete annatation
Gene Ontology
(Cellular Component)
Complete annatation
Protein-protein interaction110874
Phylogenetic treeP55769
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. CD30.9997917355978920.002510655963676390.00808041996253054
AZA vs. DISU-0.2856732170898730.2588646586340880.839581352451412
AZA vs. IL70.1788340961772580.3520747297931230.999311006273513
AZA vs. SAHA-0.303363721815210.2138575851030420.581996326760701
DISU vs. CD3-1.297277465411490.0004407253485030350.00204912201505439
DISU vs. IL70.4549328664648510.07123871424799680.35466433860256
DISU vs. SAHA-0.01558379337769460.9573170616095320.990167142647537
DMSO vs. AZA-0.02579754845866750.8775890251584121
DMSO vs. CD3-1.037390855044890.001348436335446790.0044392905143151
DMSO vs. DISU0.2579452829049820.2903813887228240.803718198397363
DMSO vs. IL70.2119597118277090.2382916339688910.744318806053491
DMSO vs. SAHA-0.2829953830671520.2300723646984780.576749934858743
HIV vs. Mock in Activation0.07537050783788650.9035869081809820.999983755607037
HIV vs. Mock in Latency-0.06935791457345030.6746458028681270.999834320637052
IL7 vs. CD3-0.8146980438162560.01192152006066530.034410775923862
SAHA vs. CD3-1.326414207341630.0002270369301596850.000985155927874016
SAHA vs. IL7-0.4842286421511920.04709100895102580.176711443596655
(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 -0.231457 0.0931871
(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
1.011 0.949 0.918 0.817 0.825
(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
DB07374 Anisomycin experimental unknown unknown
DB02494 Alpha-Hydroxy-Beta-Phenyl-Propionic Acid experimental unknown unknown

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
1E7K X-ray 2.9Å A/B=1-128.
2JNB NMR - A=1-128.
2OZB X-ray 2.6Å A/D=1-128.
3JCR EM 7.0Å I=1-128.
3SIU X-ray 2.6Å A/D=1-128.
3SIV X-ray 3.3Å A/D/G/J=1-128.

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

HIV Partner Interaction Type PubMed
nucleocapsid interacts with 22190034
Tat upregulates 23166591

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03008 Ribosome biogenesis in eukaryotes - Homo sapiens (human)
hsa03040 Spliceosome - Homo sapiens (human)