Family Search for PF15135 (UPF0515)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
PF15135 hits 3 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
SHFL_HUMAN / Q9NUL5 Shiftless antiviral inhibitor of ribosomal frameshifting protein; SFL; SHFL; Interferon-regulated antiviral protein; IRAV; Repressor of yield of DENV protein; RyDEN from Homo sapiens (Human) (see 6 papers)
NP_060851 shiftless antiviral inhibitor of ribosomal frameshifting protein isoform 1 from Homo sapiens
Aligns to 16:272 / 291 (88.3%), covers 100.0% of PF15135, 407.7 bits
- function: Inhibits programmed -1 ribosomal frameshifting (-1PRF) of a variety of mRNAs from viruses, such as HIV1, and cellular genes, such as PEG10. Interacts with the -1PRF signal of target mRNA and translating ribosomes and causes premature translation termination at the frameshifting site (PubMed:30682371). Regulates HIV1 GAG-POL expression by inhibiting -1PRF (PubMed:30682371). Exhibits antiviral activity against dengue virus (DENV) and can inhibit the replication of all DENV serotypes. May block the protein translation of DENV RNA via its association with cellular mRNA-binding proteins and viral RNA. Interrupts also Zika virus replication by promoting viral NS3 degradation via a lysosome-dependent pathway (PubMed:32150556). Can also limit the replication of hepatitis C virus (HCV) by restricting formation of viral replication organelle, West Nile virus (WNV), Chikungunya virus (CHIKV), herpes simplex virus type 1 (HHV-1), herpes virus type 8 (HHV-8) and human adenovirus (PubMed:26735137, PubMed:27974568, PubMed:30944177, PubMed:32294532). Binds nucleic acids with a higher affinity for ssRNA and ssDNA than for dsDNA (PubMed:27974568).
function: Isoform 4 does not inhibit programmed ribosomal frameshifting (-1PRF). Does not bind to ribosomes.
subunit: Interacts with PABPC1 (PubMed:26735137). Found in a complex with PABPC1 and LARP1 (PubMed:26735137). Interacts with ELAV1, MOV10 and UPF1; the interactions increase in presence of RNA (PubMed:27974568). Binds to ribosomes (PubMed:30682371). Interacts with GSPT1 (PubMed:30682371).
subunit: (Microbial infection) Interacts with the human dengue virus DENV proteins NS3 and NS4A.
subunit: (Microbial infection) Interacts with Zika virus protein NS3; this interaction promotes viral NS3 degradation. - Editorial: Machine learning-based methods for RNA data analysis-Volume II.
Peng, Frontiers in genetics 2022 - “...5-fold cross validation. They predicted that lncRNAs SNHG3, SFPQ, and PRPF31 may interact with proteins Q9NUL5, Q9NUL5, and Q9UKV8, respectively. Yao et al. designed a random walk with restart algorithm (MHRWRLDA) to infer LDAs on multiplex and heterogeneous networks. MHRWRLDA computed an AUC of 0.6874 under...”
- Serum Glycoproteomics and Identification of Potential Mechanisms Underlying Alzheimer's Disease
Kerdsaeng, Behavioural neurology 2021 - “...Leucine-rich repeat, immunoglobulin-like domain, and transmembrane domain-containing protein 3 74,754 N-linked (GlcNAc) asparagine PTM: glycosylated Q9NUL5 Shiftless antiviral inhibitor of ribosomal frameshifting protein (SFL) (SHFL) (interferon-regulated antiviral protein) (IRAV) (repressor of yield of DENV protein) (RyDEN) 33,110 Q12788 Transducin beta-like protein 3 (WD repeat-containing protein SAZD)...”
- LPI-EnEDT: an ensemble framework with extra tree and decision tree classifiers for imbalanced lncRNA-protein interaction data classification.
Peng, BioData mining 2021 - “...YES 5 13 5 5 15 Dataset 3 O00425 YES 1 1 4 2 2 Q9NUL5 YES 2 13 1 4 4 Q9Y6M1 YES 3 4 3 1 3 Q13148 NO 4 5 10 14 11 P35637 NO 5 9 5 9 7 Finding potential lncRNAs...”
- “...can be observed that the associations between NRON and Q15717, LINC00958 and Q9Y6M1, RP11-819C21.1 and Q9NUL5, AthlncRNA32 and 22328551, and ZmalncRNA1113 and B4FPJ2 have the highest association scores among unlabeled lncRNA-protein pairs on datasets 1-5, respectively. On the five datasets, there are separately 55,165, 74,340, 26,730,...”
- LPI-HyADBS: a hybrid framework for lncRNA-protein interaction prediction integrating feature selection and classification.
Zhou, BMC bioinformatics 2021 - “...9 78 54 7 P31483 YES 5 10 9 7 84 2 9 Dataset 3 Q9NUL5 YES 1 5 1 1 26 7 6 Q9Y6M1 YES 2 6 3 4 2 2 11 Q9NZI8 YES 3 10 5 3 16 6 5 P35637 NO 4 11...”
- “...lncRNA-protein pairs, respectively. Unknown lncRNA-protein pairs between NONH-SAT048052(RP11-561C5.4) and Q15717, n383560(ZNF667-AS1) and Q15717, NONHSAT006085(RPI0-01_1004095) and Q9NUL5, AthlncRNA296(TCONS_0004-9605) and F4JLJ3, and ZmalncRNA1655 and B8A0M3 show the highest interaction probabilities, respectively. The five pairs are rank as 3, 10, 22, 15, and 1619 among all lncRNA-protein pairs, respectively....”
- LPI-deepGBDT: a multiple-layer deep framework based on gradient boosting decision trees for lncRNA-protein interaction identification.
Zhou, BMC bioinformatics 2021 - “...9 4 4 10 4 Dataset 3 Q9UKV8 NO 1 7 5 9 10 7 Q9NUL5 YES 2 1 1 1 1 5 Q9Y6M1 NO 3 4 4 5 6 6 O00425 YES 4 3 3 2 3 1 Q9NZI8 YES 5 6 2 3 2...”
- Predicting lncRNA-Protein Interaction With Weighted Graph-Regularized Matrix Factorization.
Sun, Frontiers in genetics 2021 - “...AUPR of 0.7324. The case study showed that SFPQ, SNHG3, and PRPF31 may associate with Q9NUL5, Q9NUL5, and Q9UKV8 with the highest linking probabilities and need to further experimental validation. lncRNAprotein interaction weighted graph-regularized matrix factorization lncRNA similarity protein similarity SFPQ SNHG3 PRPF31 Introduction Long non-coding...”
- “...identifying LPIs. Case study analysis suggests that there are possibly joint links between SFPQ and Q9NUL5, SNHG3 and Q9NUL5, and PRPF31 and Q9UKV8. Materials and Methods In this manuscript, we developed an LPI prediction model, LPI-WGRMF. The method can be summarized to three steps. First, experimentally...”
- A novel lncRNA-protein interaction prediction method based on deep forest with cascade forest structure.
Tian, Scientific reports 2021 - “...P35637 Yes 4 4 1 5 4 Q96PU8 Yes 5 18 16 15 17 Dataset3 Q9NUL5 No 1 1 1 1 1 Q9Y6M1 Yes 2 3 2 20 4 Q9NZI8 Yes 3 4 5 7 2 O00425 No 4 2 3 3 3 Q13148 No 5...”
- “...in dataset 3, which has been validated in dataset 1. In addition, we observe that Q9NUL5 and Q13148 may interact with SNHG3. Among all possible 27 proteins, the interaction between Q9NUL5 and SNHG3 is ranked as 1 by all five LPI prediction methods. The association between...”
- LPI-SKF: Predicting lncRNA-Protein Interactions Using Similarity Kernel Fusions
Zhou, Frontiers in genetics 2020 - “...interactions in this work. LncRNA a Species Protein b Species Confirmed? c NONHSAT130775 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT137303 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT118886 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT035663 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT124467 Homo sapiens Q9NUL5 Homo sapiens...”
- “...sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT092997 Homo sapiens Q9NUL5 Homo sapiens None NONHSAT039675 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT055307 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT138539 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT098625 Homo sapiens Q9NUL5 Homo sapiens Confirmed NONHSAT014009 Homo sapiens Q9NUL5 Homo sapiens...”
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- Association of genetic polymorphisms in the C19orf66 gene and biochemical indices of HBV infected individuals in Yunnan.
Liu, Frontiers in cellular and infection microbiology 2023 - GeneRIF: Association of genetic polymorphisms in the C19orf66 gene and biochemical indices of HBV infected individuals in Yunnan.
- Genetic polymorphisms in the C19orf66 gene influenced HIV-1 infection in a Yunnan population.
Zhang, PeerJ 2023 - GeneRIF: Genetic polymorphisms in the C19orf66 gene influenced HIV-1 infection in a Yunnan population.
- Shiftless Restricts Viral Gene Expression and Influences RNA Granule Formation during Kaposi's Sarcoma-Associated Herpesvirus Lytic Replication.
Rodriguez, Journal of virology 2022 - GeneRIF: Shiftless Restricts Viral Gene Expression and Influences RNA Granule Formation during Kaposi's Sarcoma-Associated Herpesvirus Lytic Replication.
- Modulation of Viral Programmed Ribosomal Frameshifting and Stop Codon Readthrough by the Host Restriction Factor Shiftless.
Napthine, Viruses 2021 - GeneRIF: Modulation of Viral Programmed Ribosomal Frameshifting and Stop Codon Readthrough by the Host Restriction Factor Shiftless.
- C19orf66 Inhibits Japanese Encephalitis Virus Replication by Targeting -1 PRF and the NS3 Protein.
Yu, Virologica Sinica 2021 - GeneRIF: C19orf66 Inhibits Japanese Encephalitis Virus Replication by Targeting -1 PRF and the NS3 Protein.
- C19orf66 interrupts Zika virus replication by inducing lysosomal degradation of viral NS3.
Wu, PLoS neglected tropical diseases 2020 - GeneRIF: Taken together, this study identified C19orf66 as a novel interferon-stimulated gene that exerts antiviral effects against Zika virus by specifically degrading th viral NS3 nonstructural protein.
- C19orf66 is an interferon-induced inhibitor of HCV replication that restricts formation of the viral replication organelle.
Kinast, Journal of hepatology 2020 (PubMed)- GeneRIF: C19orf66 is an interferon-induced inhibitor of HCV replication that restricts formation of the viral replication organelle.
- IRAV (FLJ11286), an Interferon-Stimulated Gene with Antiviral Activity against Dengue Virus, Interacts with MOV10.
Balinsky, Journal of virology 2017 - GeneRIF: IRAV is an RNA binding protein and localizes to cytoplasmic processing bodies (P bodies) in uninfected cells, where it interacts with the MOV10 RISC complex RNA helicase, suggesting a role for IRAV in the processing of viral RNA.
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XP_006510468 shiftless antiviral inhibitor of ribosomal frameshifting protein homolog isoform X1 from Mus musculus
Aligns to 1:202 / 220 (91.8%), covers 74.2% of PF15135, 351.2 bits
K7EML3 Shiftless antiviral inhibitor of ribosomal frameshifting (Fragment) from Homo sapiens
Aligns to 5:71 / 71 (94.4%), covers 18.1% of PF15135, 35.8 bits
Or search for genetic data about PF15135 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory