| 2005 |
TFIP11 localizes to a novel subnuclear structure termed the 'TFIP body', distinct from but proximal to SC35 nuclear speckles. This localization is RNA-dependent (TFIP body disperses after RNase A treatment), and RNA polymerase II inhibition causes enlargement and reduced number of TFIP bodies. An in vivo splicing assay demonstrated TFIP11 functions as a splicing factor. |
GFP-tagging and live-cell fluorescence microscopy, RNase A treatment, RNA Pol II inhibitor treatment (α-amanitin, actinomycin D), in vivo splicing assay |
Cellular and molecular life sciences : CMLS |
Medium |
15868102
|
| 2008 |
TFIP11 (human homolog of yeast Ntr1) is present in the post-splicing Intron Large (IL) complex containing U2, U5, and U6 snRNAs. A TFIP11 mutant lacking the interaction domain with hPrp43 caused accumulation of the IL complex and reduction of Intron Small (IS) complex formation in vitro, indicating TFIP11 cooperates with hPrp43 to mediate the IL-to-IS transition, enabling debranching and intron turnover. |
Two-tag affinity purification of lariat intron RNA-protein complexes, glycerol gradient sedimentation, in vitro splicing assay with TFIP11 interaction-domain mutant |
Nucleic acids research |
High |
19103666
|
| 2008 |
TFIP11 directly interacts with mDEAH9/DHX15 (the mammalian homolog of yeast Prp43). When co-expressed, TFIP11 recruits mDEAH9 to distinct nuclear speckles, whereas mDEAH9 alone shows diffuse nuclear distribution. The G-patch domain in the N-terminal region of TFIP11 is responsible for this interaction. |
Co-transfection of GFP-tagged proteins, confocal microscopy co-localization, sequence homology analysis |
International journal of molecular sciences |
Medium |
19165350
|
| 2008 |
TFIP11 interacts with cyclin L1 (CCNL1) and Ewing sarcoma breakpoint region 1 protein (EWSR1), both spliceosome-related proteins, and all three co-localize to speckled nuclear domains, suggesting participation in a common RNA splicing activity. |
Yeast two-hybrid assay (initial identification), fluorescently-tagged protein co-expression and confocal microscopy co-localization |
International journal of molecular sciences |
Low |
19122807
|
| 2009 |
TFIP11 contains a novel atypical nuclear localization signal (NLS) at amino acids 701-706 (VKDKFN) and a distinct speckle-targeting sequence (STS) within amino acids 711-735, identified by sequential C-terminal deletions and mutational analyses of mouse TFIP11. |
Sequential C-terminal deletions and site-directed mutagenesis of GFP-tagged TFIP11, fluorescence microscopy |
Biochemical and biophysical research communications |
Medium |
19857462
|
| 2007 |
Yeast Ntr1/Spp382 (ortholog of human TFIP11) and Ntr2 form a stable complex that recruits the DExD/H-box helicase Prp43 dynamically to the spliceosome to catalyze disassembly. Ntr1-Ntr2 can bind the spliceosome prior to Prp43 recruitment; spliceosome binding does not require ATP but disassembly requires ATP hydrolysis. Ntr2 interacts with U5 component Brr2 and is essential for NTR-U5 and NTR-spliceosome interactions. |
Co-immunoprecipitation, in vitro binding assays, ATP hydrolysis-deficient mutants, genetic interaction analysis, metabolic depletion |
Molecular and cellular biology |
High |
17893323
|
| 2006 |
Yeast Ntr1/Spp382 (ortholog of TFIP11) associates with a post-splicing complex containing the excised intron and U2, U5, U6 snRNAs. Depletion of Ntr1 reduces splicing activity, causes intron accumulation, decreases free U5 and U6 snRNPs, and disrupts Prp43 association with the excised intron. Ntr1 acts as a spliceosome receptor/RNA-targeting factor for Prp43 to promote intron release and snRNP recycling. |
Metabolic depletion of Ntr1, in vitro splicing assays, snRNA/snRNP analysis, co-immunoprecipitation |
Molecular and cellular biology |
High |
16880513
|
| 2006 |
Yeast Spp382/Ntr1 (ortholog of TFIP11) is required for cellular splicing and intron turnover. Weak spp382 alleles suppress splicing defects caused by mutations in Prp38 and Prp8, defining a Spp382-dependent turnover/discard pathway for defective spliceosomes. Spp382 binds Prp43, and Prp43 requires Spp382 for intron release. Spp382 also interacts with the DnaJ-like protein Cwc23. Defective splicing complexes lacking the 5' exon cleavage intermediate are recovered with tagged Spp382. |
Genetic suppressor screen, tandem affinity purification, two-hybrid assay, proteomic analysis, in vivo splicing assays |
Proceedings of the National Academy of Sciences of the United States of America |
High |
16945917
|
| 2007 |
Human TFIP11 (NTR1) and its yeast ortholog Ntr1/Spp382 interact with the DNA ligase IV-associated proteins XRCC4 (human) and Lif1p (yeast), occupying the DNA ligase IV-binding sites and thereby preventing formation of an active NHEJ ligation complex. Excess Ntr1p in yeast reduces NHEJ efficiency in plasmid ligation and chromosomal DSB repair assays. Both yeast and human NTR1 also interact with the G-patch protein PinX1. TFIP11/Ntr1 localizes to telomeres and nucleoli. |
Yeast two-hybrid assay, plasmid ligation assay, chromosomal DSB repair assay, subcellular localization (yeast and human cells) |
Nucleic acids research |
Medium |
17389648
|
| 2009 |
Yeast Spp382/Ntr1 interacts with multiple splicing factors (Prp8, Prp9, Prp11, Prp39, Yhc1) and with Sqs1 and Cwc23. Sqs1 copurifies with Prp43, binds both Prp43 and Spp382, and overexpression of Sqs1 blocks pre-mRNA splicing; increased Prp43 levels buffer Sqs1 cytotoxicity, identifying Prp43 as a target of Sqs1. CWC23 activity is critical for splicing and intron metabolism but the DnaJ motif is dispensable, though genetic interactions between the CWC23 J domain and Ntr1/Prp43 suggest an auxiliary Hsp70 chaperone role in disassembly. |
Dosage interference assay, copurification, yeast two-hybrid, overexpression epistasis, in vivo splicing assays |
Genetics |
Medium |
19581443
|
| 2013 |
C2ORF3 was identified as a novel component of the post-splicing IL (Intron Large) complex via immunoprecipitation with hPrp43 and TFIP11 followed by mass spectrometry. Depletion of C2ORF3 from nuclear extracts significantly represses pre-mRNA splicing in vitro, suggesting its role in intron turnover. |
Immunoprecipitation with TFIP11 and hPrp43, mass spectrometry, in vitro splicing with C2ORF3-depleted nuclear extract |
Genes to cells : devoted to molecular & cellular mechanisms |
Medium |
24304693
|
| 2017 |
Cryo-EM structure of the yeast intron lariat spliceosome (ILS) at 3.5 Å resolution shows the C-terminal domain of Ntr1/Spp382 (yeast ortholog of TFIP11) associates with the GTPase Snu114, while Ntr2 is anchored to Prp8 and interacts with the superhelical domain of Ntr1. The DEAH helicase Prp43 binds Syf1 at the spliceosome periphery with its RNA-binding site close to the 3' end of U6 snRNA, providing structural basis for ILS disassembly. |
Cryo-electron microscopy structure determination at 3.5 Å resolution |
Cell |
High |
28919079
|
| 2021 |
TFIP11 localizes to nucleoli and Cajal Bodies and is essential for 2'-O-methylation of U6 snRNA. TFIP11 knockdown reduces association of U6 snRNA with fibrillarin and associated snoRNAs, thereby impairing U6 2'-O-methylation. U6 hypomethylation impairs U4/U6.U5 tri-snRNP assembly, leading to spliceosome assembly defects and altered splicing fidelity. This function of TFIP11 is independent of DHX15. |
siRNA knockdown, snRNA methylation analysis, co-immunoprecipitation (U6 with fibrillarin/snoRNAs), tri-snRNP assembly assay, RNA-seq splicing analysis, fluorescence microscopy |
Nature communications |
High |
34789764
|
| 2024 |
Cryo-EM structures of nematode and human terminal intron lariat spliceosomes reveal that TFIP11 and C19L1, together with SYF1, SYF2, and SDE2, dock onto and activate DHX15 on the catalytic U6 snRNA to initiate spliceosome disassembly. TFIP11 and C19L1 probe inner and outer spliceosome surfaces to detect the release of ligated mRNA. U6 snRNA thus controls both the start and end of pre-mRNA splicing. |
Cryo-electron microscopy structure determination of nematode and human terminal ILS complexes, biochemical and genetic validation |
Nature |
High |
38925148
|
| 2024 |
TFIP11 forms a complex with the BLM helicase and preferentially binds DNA substrates mimicking stalled replication fork structures. Loss of TFIP11 causes abnormal accumulation of BLM at stalled forks, impairs RAD51-mediated fork reversal and fork slowing, sensitizes cells to replication stress-inducing agents, and enhances chromosomal instability. |
Co-immunoprecipitation, DNA substrate binding assays, replication fork assays, RAD51 foci analysis, cell survival assays, chromosomal instability analysis, siRNA/genetic knockout |
Nature communications |
High |
38341452
|
| 2024 |
The N-terminal region of TFIP11 is an intrinsically disordered polyampholytic protein that exhibits structural duality with coexisting ordered and disordered assemblies in a salt-dependent manner. Increasing ionic strength enhances conformational flexibility, promoting a more globule-like shape that may favor liquid-liquid phase separation and protein-RNA interaction. The G-patch domain, essential for TFIP11 function, is among the most conformationally impacted regions. |
Disorder prediction, molecular dynamics simulation, spectroscopy (CD, NMR-type methods implied), recombinant protein characterization |
International journal of biological macromolecules |
Medium |
39089542
|
| 2010 |
A partial loss-of-function CWC23 mutant shows reduced interaction with Ntr1/Spp382 (yeast ortholog of TFIP11) and causes accumulation of excised lariat intron and unspliced pre-mRNA, implicating Cwc23 in the spliceosome disassembly pathway coordinated by Ntr1. Genetic interactions between the CWC23 J domain and Ntr1 or Prp43 suggest an auxiliary Hsp70-based chaperone role. |
Genetic interaction analysis, co-immunoprecipitation (Cwc23-Ntr1), in vivo splicing assays, site-directed mutagenesis of J domain |
Molecular and cellular biology |
Medium |
19822657
|
| 2015 |
The G-patch domain of Spp382/Ntr1 (yeast ortholog of TFIP11) is required for Spp382 function and differs from the G-patches of Sqs1 and Pxr1 in Prp43 two-hybrid response and ability to reconstitute RNA processing factors. G-patch domains are not freely interchangeable between Prp43 cofactors, suggesting G-patch identity specifies pathway-selective DExD/H-box helicase activity beyond simply tethering Prp43. |
Yeast two-hybrid, domain-swap experiments, site-directed mutagenesis, in vivo splicing/rRNA processing assays |
Genetics |
Medium |
25808954
|