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HUMAN:TADBP
Contents
Species (Taxon ID) | Homo sapiens (Human). (9606) | |
Gene Name(s) | TARDBP (synonyms: TDP43) | |
Protein Name(s) | TAR DNA-binding protein 43
TDP-43 | |
External Links | ||
UniProt | Q13148 | |
EMBL | U23731 EF434181 EF434182 EF434183 AK295920 AK312416 CR533534 AK222754 AL050265 AL109811 CH471130 BC071657 BC095435 | |
CCDS | CCDS122.1 | |
PIR | I38977 | |
RefSeq | NP_031401.1 | |
UniGene | Hs.300624 | |
PDB | 1WF0 2CQG 4BS2 4IUF | |
PDBsum | 1WF0 2CQG 4BS2 4IUF | |
ProteinModelPortal | Q13148 | |
SMR | Q13148 | |
BioGrid | 117003 | |
DIP | DIP-31167N | |
IntAct | Q13148 | |
MINT | MINT-5002768 | |
STRING | 9606.ENSP00000240185 | |
ChEMBL | CHEMBL2362981 | |
PhosphoSite | Q13148 | |
DMDM | 20140568 | |
MaxQB | Q13148 | |
PaxDb | Q13148 | |
PRIDE | Q13148 | |
DNASU | 23435 | |
Ensembl | ENST00000240185 | |
GeneID | 23435 | |
KEGG | hsa:23435 | |
UCSC | uc001art.3 uc010oap.2 | |
CTD | 23435 | |
GeneCards | GC01P011072 | |
GeneReviews | TARDBP | |
HGNC | HGNC:11571 | |
HPA | CAB003703 HPA017284 | |
MIM | 605078 612069 | |
neXtProt | NX_Q13148 | |
Orphanet | 803 275872 | |
PharmGKB | PA36336 | |
eggNOG | COG0724 | |
GeneTree | ENSGT00730000110584 | |
HOVERGEN | HBG058671 | |
InParanoid | Q13148 | |
OMA | KHNSSRQ | |
PhylomeDB | Q13148 | |
TreeFam | TF315657 | |
ChiTaRS | TARDBP | |
EvolutionaryTrace | Q13148 | |
GeneWiki | TARDBP | |
GenomeRNAi | 23435 | |
NextBio | 35472434 | |
PRO | PR:Q13148 | |
Proteomes | UP000005640 | |
Bgee | Q13148 | |
CleanEx | HS_TARDBP | |
ExpressionAtlas | Q13148 | |
Genevestigator | Q13148 | |
GO | GO:0005634 GO:0003690 GO:0042802 GO:0003730 GO:0000166 GO:0044822 GO:0003723 GO:0001205 GO:0003700 GO:0070935 GO:0006397 GO:0043922 GO:0008380 GO:0006366 | |
Gene3D | 3.30.70.330 | |
InterPro | IPR012677 IPR000504 | |
Pfam | PF00076 | |
SMART | SM00360 | |
PROSITE | PS50102 |
Annotations
Qualifier | GO ID | GO term name | Reference | ECO ID | ECO term name | with/from | Aspect | Extension | Notes | Status |
---|---|---|---|---|---|---|---|---|---|---|
GO:0071765 |
nuclear inner membrane organization |
ECO:0000315 |
P |
Figure 4 - "The lack of TDP-43 led to an uneven distribution of the nuclear envelope protein emerin along the membrane, with discrete regions of either protein accumulation or lack of protein" This proves that TDP-30 is involved in the organization of the nuclear inner membrane. With the depletion of TDP-30 the proteins that make up the inner membrane of the nucleus began to be disorganized all across the membrane. |
complete | |||||
GO:0042981 |
regulation of apoptotic process |
ECO:0000315 |
P |
Figure 4 - "U2OS showed an increase in TUNEL staining and nuclear fragmentation upon TDP-43 depletion" Part B in the figure shows that with the depletion of TDP-43 nuclear fragmentation involved in apoptosis began. The samples used were also positive for enzymes consistant with programmed cell death. |
complete | |||||
GO:0051726 |
regulation of cell cycle |
ECO:0000315 |
P |
Figure 3 - "U2OS cells showed an alteration of the cell cycle pattern after removal of TDP-43 (Fig. 3B) resulting in a 60% decrease of cells in G0/G1 accompanied by a corresponding increase in S and G2/M cells." This proves that TDP-43 regulates the distribution of the cell cycle phases. |
complete | |||||
GO:0001933 |
negative regulation of protein phosphorylation |
ECO:0000315 |
P |
Figure 3 - shows that when TDP-43 was silenced there was an increase in the phosphorylation of pRb and p130 |
complete | |||||
GO:0010629 |
negative regulation of gene expression |
ECO:0000315 |
P |
Figure 2 shows that depletion of TDP-43 led to the up-regulation of Cyclin-Dependent Protein Kinase 6 proving that TDP-43 negatively regulates the gene expression of CDK6. |
complete | |||||
GO:0061158 |
3'-UTR-mediated mRNA destabilization |
ECO:0000314 |
P |
Organism: Homo sapiens. Paper’s Protein Name: Transactive response DNA-binding protein 43 (TDP-43). UniProt’s Protein Name: TAR DNA-binding protein 43. Notes: This is seen in Figure 2B. The paper states that “to study whether TDP-43 promoted tau mRNA instability through the 3΄-UTR of the mRNA, we fused tau 3΄-UTR to the C-terminal of green fluorescence protein (GFP) to make pEGFP/tau 3΄-UTR plasmid. This plasmid allowed us to study the regulation of tau mRNA through its 3΄-UTR by measuring the expression of GFP.” As can be seen in Figure 2B, expression of GFP decreased with an increased dosage of the protein. |
complete | |||||
involved_in |
GO:0031647 |
regulation of protein stability |
ECO:0000315 |
mutant phenotype evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0010629 |
negative regulation of gene expression |
ECO:0000315 |
mutant phenotype evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0001933 |
negative regulation of protein phosphorylation |
ECO:0000315 |
mutant phenotype evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0051726 |
regulation of cell cycle |
ECO:0000315 |
mutant phenotype evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0042981 |
regulation of apoptotic process |
ECO:0000315 |
mutant phenotype evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0071765 |
nuclear inner membrane organization |
ECO:0000315 |
mutant phenotype evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
part_of |
GO:0005634 |
nucleus |
ECO:0000314 |
direct assay evidence used in manual assertion |
C |
Seeded From UniProt |
complete | |||
involved_in |
GO:0070935 |
3'-UTR-mediated mRNA stabilization |
ECO:0000314 |
direct assay evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0043922 |
negative regulation by host of viral transcription |
ECO:0000314 |
direct assay evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0008380 |
RNA splicing |
ECO:0000314 |
direct assay evidence used in manual assertion |
P |
Seeded From UniProt |
complete | |||
part_of |
GO:0005634 |
nucleus |
ECO:0000314 |
direct assay evidence used in manual assertion |
C |
Seeded From UniProt |
complete | |||
part_of |
GO:0005634 |
nucleus |
ECO:0000314 |
direct assay evidence used in manual assertion |
C |
Seeded From UniProt |
complete | |||
enables |
GO:0003730 |
mRNA 3'-UTR binding |
ECO:0000314 |
direct assay evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0003723 |
RNA binding |
ECO:0000314 |
direct assay evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0003690 |
double-stranded DNA binding |
ECO:0000314 |
direct assay evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0003723 |
RNA binding |
ECO:0007005 |
high throughput direct assay evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0003723 |
RNA binding |
ECO:0007005 |
high throughput direct assay evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
part_of |
GO:1990904 |
ribonucleoprotein complex |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
FB:FBgn0001215 |
C |
Seeded From UniProt |
complete | ||
involved_in |
GO:0070935 |
3'-UTR-mediated mRNA stabilization |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
PANTHER:PTN002691014 |
P |
Seeded From UniProt |
complete | ||
part_of |
GO:0005737 |
cytoplasm |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
PANTHER:PTN002691014 |
C |
Seeded From UniProt |
complete | ||
part_of |
GO:0005654 |
nucleoplasm |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
PANTHER:PTN002691014 |
C |
Seeded From UniProt |
complete | ||
enables |
GO:0003730 |
mRNA 3'-UTR binding |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
PANTHER:PTN002691014 |
F |
Seeded From UniProt |
complete | ||
enables |
GO:0003727 |
single-stranded RNA binding |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
PANTHER:PTN002691014 |
F |
Seeded From UniProt |
complete | ||
enables |
GO:0003723 |
RNA binding |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
MGI:MGI:104819 |
F |
Seeded From UniProt |
complete | ||
enables |
GO:0003690 |
double-stranded DNA binding |
ECO:0000318 |
biological aspect of ancestor evidence used in manual assertion |
PANTHER:PTN002691014 |
F |
Seeded From UniProt |
complete | ||
enables |
GO:0042802 |
identical protein binding |
ECO:0000353 |
physical interaction evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0042802 |
identical protein binding |
ECO:0000353 |
physical interaction evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0042802 |
identical protein binding |
ECO:0000353 |
physical interaction evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0042802 |
identical protein binding |
ECO:0000353 |
physical interaction evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0042802 |
identical protein binding |
ECO:0000353 |
physical interaction evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0042802 |
identical protein binding |
ECO:0000353 |
physical interaction evidence used in manual assertion |
F |
Seeded From UniProt |
complete | |||
part_of |
GO:0005654 |
nucleoplasm |
ECO:0000314 |
direct assay evidence used in manual assertion |
C |
Seeded From UniProt |
complete | |||
involved_in |
GO:0006355 |
regulation of transcription, DNA-templated |
ECO:0000364 |
evidence based on logical inference from manual annotation used in automatic assertion |
GO:0003700 |
P |
Seeded From UniProt |
complete | ||
involved_in |
GO:0045944 |
positive regulation of transcription by RNA polymerase II |
ECO:0000366 |
evidence based on logical inference from automatic annotation used in automatic assertion |
GO:0001228 |
P |
Seeded From UniProt |
complete | ||
part_of |
GO:0035061 |
interchromatin granule |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
C |
Seeded From UniProt |
complete | ||
involved_in |
GO:0034976 |
response to endoplasmic reticulum stress |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
P |
Seeded From UniProt |
complete | ||
involved_in |
GO:0032024 |
positive regulation of insulin secretion |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
P |
Seeded From UniProt |
complete | ||
part_of |
GO:0016607 |
nuclear speck |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
C |
Seeded From UniProt |
complete | ||
part_of |
GO:0005737 |
cytoplasm |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
C |
Seeded From UniProt |
complete | ||
part_of |
GO:0005726 |
perichromatin fibrils |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
C |
Seeded From UniProt |
complete | ||
part_of |
GO:0005634 |
nucleus |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
C |
Seeded From UniProt |
complete | ||
enables |
GO:0003723 |
RNA binding |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:I6L9G6 |
F |
Seeded From UniProt |
complete | ||
enables |
GO:1990837 |
sequence-specific double-stranded DNA binding |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:Q921F2 |
F |
Seeded From UniProt |
complete | ||
involved_in |
GO:0042752 |
regulation of circadian rhythm |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:Q921F2 |
P |
Seeded From UniProt |
complete | ||
involved_in |
GO:0042307 |
positive regulation of protein import into nucleus |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:Q921F2 |
P |
Seeded From UniProt |
complete | ||
involved_in |
GO:0031647 |
regulation of protein stability |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:Q921F2 |
P |
Seeded From UniProt |
complete | ||
part_of |
GO:0005634 |
nucleus |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:Q921F2 |
C |
Seeded From UniProt |
complete | ||
enables |
GO:0001228 |
DNA-binding transcription activator activity, RNA polymerase II-specific |
ECO:0000265 |
sequence orthology evidence used in automatic assertion |
UniProtKB:Q921F2 |
F |
Seeded From UniProt |
complete | ||
enables |
GO:0003676 |
nucleic acid binding |
ECO:0000256 |
match to sequence model evidence used in automatic assertion |
F |
Seeded From UniProt |
complete | |||
involved_in |
GO:0006366 |
transcription by RNA polymerase II |
ECO:0000304 |
author statement supported by traceable reference used in manual assertion |
P |
Seeded From UniProt |
complete | |||
enables |
GO:0003700 |
DNA-binding transcription factor activity |
ECO:0000304 |
author statement supported by traceable reference used in manual assertion |
F |
Seeded From UniProt |
complete | |||
involved_in |
GO:0048511 |
rhythmic process |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
P |
Seeded From UniProt |
complete | |||
part_of |
GO:0005737 |
cytoplasm |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
C |
Seeded From UniProt |
complete | |||
involved_in |
GO:0008380 |
RNA splicing |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
P |
Seeded From UniProt |
complete | |||
involved_in |
GO:0006397 |
mRNA processing |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
P |
Seeded From UniProt |
complete | |||
part_of |
GO:0005634 |
nucleus |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
C |
Seeded From UniProt |
complete | |||
enables |
GO:0003723 |
RNA binding |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
F |
Seeded From UniProt |
complete | |||
enables |
GO:0003677 |
DNA binding |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
F |
Seeded From UniProt |
complete | |||
part_of |
GO:0010494 |
cytoplasmic stress granule |
ECO:0000322 |
imported manually asserted information used in automatic assertion |
C |
Seeded From UniProt |
complete | |||
Notes
References
See Help:References for how to manage references in GONUTS.
- ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Ayala, YM et al. (2008) TDP-43 regulates retinoblastoma protein phosphorylation through the repression of cyclin-dependent kinase 6 expression. Proc. Natl. Acad. Sci. U.S.A. 105 3785-9 PubMed GONUTS page
- ↑ Gu, J et al. (2017) TDP-43 suppresses tau expression via promoting its mRNA instability. Nucleic Acids Res. PubMed GONUTS page
- ↑ Hirano, A et al. (2016) USP7 and TDP-43: Pleiotropic Regulation of Cryptochrome Protein Stability Paces the Oscillation of the Mammalian Circadian Clock. PLoS ONE 11 e0154263 PubMed GONUTS page
- ↑ 4.0 4.1 4.2 Strong, MJ et al. (2007) TDP43 is a human low molecular weight neurofilament (hNFL) mRNA-binding protein. Mol. Cell. Neurosci. 35 320-7 PubMed GONUTS page
- ↑ 5.0 5.1 5.2 5.3 Ou, SH 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 3584-96 PubMed GONUTS page
- ↑ 6.0 6.1 6.2 Buratti, E et al. (2001) Nuclear factor TDP-43 and SR proteins promote in vitro and in vivo CFTR exon 9 skipping. EMBO J. 20 1774-84 PubMed GONUTS page
- ↑ Baltz, AG et al. (2012) The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Mol. Cell 46 674-90 PubMed GONUTS page
- ↑ Castello, A et al. (2012) Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Cell 149 1393-406 PubMed GONUTS page
- ↑ 9.0 9.1 9.2 9.3 9.4 9.5 9.6 9.7 Gaudet, P et al. (2011) Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Brief. Bioinformatics 12 449-62 PubMed GONUTS page
- ↑ Lim, L et al. (2016) ALS-Causing Mutations Significantly Perturb the Self-Assembly and Interaction with Nucleic Acid of the Intrinsically Disordered Prion-Like Domain of TDP-43. PLoS Biol. 14 e1002338 PubMed GONUTS page
- ↑ Che, MX et al. (2015) TDP-35 sequesters TDP-43 into cytoplasmic inclusions through binding with RNA. FEBS Lett. 589 1920-8 PubMed GONUTS page
- ↑ Chang, CK et al. (2013) Molecular mechanism of oxidation-induced TDP-43 RRM1 aggregation and loss of function. FEBS Lett. 587 575-82 PubMed GONUTS page
- ↑ Cohen, TJ et al. (2012) Redox signalling directly regulates TDP-43 via cysteine oxidation and disulphide cross-linking. EMBO J. 31 1241-52 PubMed GONUTS page
- ↑ Guo, W et al. (2011) An ALS-associated mutation affecting TDP-43 enhances protein aggregation, fibril formation and neurotoxicity. Nat. Struct. Mol. Biol. 18 822-30 PubMed GONUTS page
- ↑ Zhang, YJ et al. (2009) Aberrant cleavage of TDP-43 enhances aggregation and cellular toxicity. Proc. Natl. Acad. Sci. U.S.A. 106 7607-12 PubMed GONUTS page
d
n
- GO:0043922 ! negative regulation by host of viral transcription
- GO:0010629 ! negative regulation of gene expression
- GO:0001933 ! negative regulation of protein phosphorylation
- GO:0071765 ! nuclear inner membrane organization
- GO:0016607 ! nuclear speck
- GO:0003676 ! nucleic acid binding
- GO:0005654 ! nucleoplasm
- GO:0005634 ! nucleus
p
r
- GO:0051726 ! regulation of cell cycle
- GO:0031647 ! regulation of protein stability
- GO:0042752 ! regulation of circadian rhythm
- GO:0006355 ! regulation of DNA-templated transcription
- GO:0042981 ! regulation of apoptotic process
- GO:0034976 ! response to endoplasmic reticulum stress
- GO:0048511 ! rhythmic process
- GO:1990904 ! ribonucleoprotein complex
- GO:0003723 ! RNA binding
- GO:0008380 ! RNA splicing
s