TARDBP

From Wikipedia, the free encyclopedia

TAR DNA binding protein

PDB rendering based on 1wf0.

Available structures: 1wf0, 2cqg

Identifiers

Symbol(s)

TARDBP; TDP-43

External IDs

OMIM: 605078 MGI: 2387629 HomoloGene: 7221

Gene ontology
Molecular Function:	• nucleotide binding • transcription factor activity • RNA binding • protein binding • microtubule binding
Cellular Component:	• nucleus
Biological Process:	• transcription • regulation of transcription, DNA-dependent • transcription from RNA polymerase II promoter • mRNA processing • mitosis • RNA splicing

RNA expression pattern

More reference expression data

Orthologs

Human

Mouse

Refseq

NM_007375 (mRNA)
NP_031401 (protein)

NM_001003898 (mRNA)
NP_001003898 (protein)

Location

Chr 1: 11 - 11.01 Mb

Chr 4: 147.46 - 147.47 Mb

Pubmed search

[1]

[2]

TAR DNA binding protein, also known as TARDBP or as TDP-43, is a cellular protein.^[1] It is one of the genes on chromosome 1. Pathology in this protein has been linked to a couple of diseases, such as frontotemporal lobar degeneration and motor neuron disease.^[2]

[edit] TARDBP and HIV

HIV-1, the causative agent of acquired immunodeficiency syndrome (AIDS), contains an RNA genome that produces a chromosomally integrated DNA during the replicative cycle. Activation of HIV-1 gene expression by the transactivator Tat is dependent on an RNA regulatory element (TAR) located downstream of the transcription initiation site. The protein encoded by this gene is a transcriptional repressor that binds to chromosomally integrated TAR DNA and represses HIV-1 transcription. In addition, this protein regulates alternate splicing of the CFTR gene. A similar pseudogene is present on chromosome 20.^[3]

[edit] References

[edit] Further reading

Kwong LK, Neumann M, Sampathu DM, et al. (2007). "TDP-43 proteinopathy: the neuropathology underlying major forms of sporadic and familial frontotemporal lobar degeneration and motor neuron disease.". Acta Neuropathol. 114 (1): 63-70. doi:10.1007/s00401-007-0226-5. PMID 17492294.
Ou SH, Wu F, Harrich D, et al. (1995). "Cloning and characterization of a novel cellular protein, TDP-43, that binds to human immunodeficiency virus type 1 TAR DNA sequence motifs.". J. Virol. 69 (6): 3584-96. PMID 7745706.
Maruyama K, Sugano S (1994). "Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides.". Gene 138 (1-2): 171-4. PMID 8125298.
Tokai N, Fujimoto-Nishiyama A, Toyoshima Y, et al. (1996). "Kid, a novel kinesin-like DNA binding protein, is localized to chromosomes and the mitotic spindle.". EMBO J. 15 (3): 457-67. PMID 8599929.
Bonaldo MF, Lennon G, Soares MB (1997). "Normalization and subtraction: two approaches to facilitate gene discovery.". Genome Res. 6 (9): 791-806. PMID 8889548.
Suzuki Y, Yoshitomo-Nakagawa K, Maruyama K, et al. (1997). "Construction and characterization of a full length-enriched and a 5'-end-enriched cDNA library.". Gene 200 (1-2): 149-56. PMID 9373149.
Hartley JL, Temple GF, Brasch MA (2001). "DNA cloning using in vitro site-specific recombination.". Genome Res. 10 (11): 1788-95. PMID 11076863.
Wiemann S, Weil B, Wellenreuther R, et al. (2001). "Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs.". Genome Res. 11 (3): 422-35. doi:10.1101/gr.154701. PMID 11230166.
Buratti E, Dörk T, Zuccato E, et al. (2001). "Nuclear factor TDP-43 and SR proteins promote in vitro and in vivo CFTR exon 9 skipping.". EMBO J. 20 (7): 1774-84. doi:10.1093/emboj/20.7.1774. PMID 11285240.
Buratti E, Baralle FE (2001). "Characterization and functional implications of the RNA binding properties of nuclear factor TDP-43, a novel splicing regulator of CFTR exon 9.". J. Biol. Chem. 276 (39): 36337-43. doi:10.1074/jbc.M104236200. PMID 11470789.
Wang IF, Reddy NM, Shen CK (2002). "Higher order arrangement of the eukaryotic nuclear bodies.". Proc. Natl. Acad. Sci. U.S.A. 99 (21): 13583-8. doi:10.1073/pnas.212483099. PMID 12361981.
Strausberg RL, Feingold EA, Grouse LH, et al. (2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.". Proc. Natl. Acad. Sci. U.S.A. 99 (26): 16899-903. doi:10.1073/pnas.242603899. PMID 12477932.
Lehner B, Sanderson CM (2004). "A protein interaction framework for human mRNA degradation.". Genome Res. 14 (7): 1315-23. doi:10.1101/gr.2122004. PMID 15231747.
Gerhard DS, Wagner L, Feingold EA, et al. (2004). "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).". Genome Res. 14 (10B): 2121-7. doi:10.1101/gr.2596504. PMID 15489334.
Wiemann S, Arlt D, Huber W, et al. (2004). "From ORFeome to biology: a functional genomics pipeline.". Genome Res. 14 (10B): 2136-44. doi:10.1101/gr.2576704. PMID 15489336.
Buratti E, Brindisi A, Giombi M, et al. (2006). "TDP-43 binds heterogeneous nuclear ribonucleoprotein A/B through its C-terminal tail: an important region for the inhibition of cystic fibrosis transmembrane conductance regulator exon 9 splicing.". J. Biol. Chem. 280 (45): 37572-84. doi:10.1074/jbc.M505557200. PMID 16157593.
Stelzl U, Worm U, Lalowski M, et al. (2005). "A human protein-protein interaction network: a resource for annotating the proteome.". Cell 122 (6): 957-68. doi:10.1016/j.cell.2005.08.029. PMID 16169070.
Rual JF, Venkatesan K, Hao T, et al. (2005). "Towards a proteome-scale map of the human protein-protein interaction network.". Nature 437 (7062): 1173-8. doi:10.1038/nature04209. PMID 16189514.
Mehrle A, Rosenfelder H, Schupp I, et al. (2006). "The LIFEdb database in 2006.". Nucleic Acids Res. 34 (Database issue): D415-8. doi:10.1093/nar/gkj139. PMID 16381901.
Gregory SG, Barlow KF, McLay KE, et al. (2006). "The DNA sequence and biological annotation of human chromosome 1.". Nature 441 (7091): 315-21. doi:10.1038/nature04727. PMID 16710414.