Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0004844
UniProt IDQ9NW38
Primary gene name(s)FANCL
Synonym gene name(s)PHF9
Protein nameE3 ubiquitin-protein ligase FANCL
Protein functionUbiquitin ligase protein that mediates monoubiquitination of FANCD2, a key step in the DNA damage pathway. Also mediates monoubiquitination of FANCI. May stimulate the ubiquitin release from UBE2W. May be required for proper primordial germ cell proliferation in the embryonic stage, whereas it is probably not needed for spermatogonial proliferation after birth. {ECO:0000269|PubMed:12973351, ECO:0000269|PubMed:16916645, ECO:0000269|PubMed:17938197, ECO:0000269|PubMed:19111657, ECO:0000269|PubMed:19589784}.
Subcellular locationCytoplasm. Nucleus.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9NW38
Gene Ontology
(Biological Process)
Complete annatation
cellular response to DNA damage stimulus [GO:0006974];
DNA repair [GO:0006281];
gamete generation [GO:0007276];
interstrand cross-link repair [GO:0036297];
protein monoubiquitination [GO:0006513];
regulation of cell proliferation [GO:0042127]
Gene Ontology
(Molecular Function)
Complete annatation
ligase activity [GO:0016874];
metal ion binding [GO:0046872];
ubiquitin protein ligase activity [GO:0061630];
ubiquitin protein ligase binding [GO:0031625];
ubiquitin-protein transferase activity [GO:0004842]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
Fanconi anaemia nuclear complex [GO:0043240];
nuclear envelope [GO:0005635];
nucleoplasm [GO:0005654]
Protein-protein interaction120429
Phylogenetic treeQ9NW38
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. CD31.824172685071440.001116609299295910.00400512502593717
AZA vs. DISU-0.02341628807008320.9286285457318760.995042856396371
AZA vs. IL70.2102357968781680.3018262705739280.999311006273513
AZA vs. SAHA-0.3297305207660490.2047405152234610.572165095750547
DISU vs. CD3-1.859562277493870.001040505961711460.0042959701086931
DISU vs. IL70.2245815182345460.3873405964053810.755599188516118
DISU vs. SAHA-0.3070725446192620.3106011170860280.693619068609396
DMSO vs. AZA-0.1237793572438120.4971216695319691
DMSO vs. CD3-1.95895922859670.0005721442048478580.00210228108439829
DMSO vs. DISU-0.1017440426748560.6869888919386690.957954410639349
DMSO vs. IL70.3400001454871230.07633414470022680.521639724096065
DMSO vs. SAHA-0.2133677834936010.4122222305432450.753499240329564
HIV vs. Mock in Activation-0.1395073704069990.9066554833675220.999983755607037
HIV vs. Mock in Latency0.1807844816531010.3008296270502260.999834320637052
IL7 vs. CD3-1.604582280052940.004517105868913850.0153902207871018
SAHA vs. CD3-2.182194809315640.0003058860741973480.00127657245587207
SAHA vs. IL7-0.5458577629976420.05500523461975330.196403357535009
(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 0.980252 0.00438837
(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
0.825 0.971 0.744 0.658 1.017
(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
218397_at 1.94 No upregulated in CD8+ cells

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
3ZQS X-ray 2.0Å A/B=109-294.
4CCG X-ray 2.4Å X/Y=288-375.

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
hsa03460 Fanconi anemia pathway - Homo sapiens (human)
hsa04120 Ubiquitin mediated proteolysis - Homo sapiens (human)