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HUMAN:TADBP

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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

PMID:18305152[1]

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
CACAO 7485

GO:0042981

regulation of apoptotic process

PMID:18305152[1]

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
CACAO 7490

GO:0051726

regulation of cell cycle

PMID:18305152[1]

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
CACAO 7497

GO:0001933

negative regulation of protein phosphorylation

PMID:18305152[1]

ECO:0000315

P

Figure 3 - shows that when TDP-43 was silenced there was an increase in the phosphorylation of pRb and p130

complete
CACAO 7502

GO:0010629

negative regulation of gene expression

PMID:18305152[1]

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
CACAO 7513

GO:0061158

3'-UTR-mediated mRNA destabilization

PMID:28335005[2]

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
CACAO 12354

involved_in

GO:0031647

regulation of protein stability

PMID:27123980[3]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0010629

negative regulation of gene expression

PMID:18305152[1]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0001933

negative regulation of protein phosphorylation

PMID:18305152[1]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0051726

regulation of cell cycle

PMID:18305152[1]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0042981

regulation of apoptotic process

PMID:18305152[1]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0071765

nuclear inner membrane organization

PMID:18305152[1]

ECO:0000315

mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

part_of

GO:0005634

nucleus

GO_REF:0000054

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

involved_in

GO:0070935

3'-UTR-mediated mRNA stabilization

PMID:17481916[4]

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

PMID:7745706[5]

ECO:0000314

direct assay evidence used in manual assertion

P

Seeded From UniProt

complete

involved_in

GO:0008380

RNA splicing

PMID:11285240[6]

ECO:0000314

direct assay evidence used in manual assertion

P

Seeded From UniProt

complete

part_of

GO:0005634

nucleus

PMID:17481916[4]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

part_of

GO:0005634

nucleus

PMID:11285240[6]

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

enables

GO:0003730

mRNA 3'-UTR binding

PMID:17481916[4]

ECO:0000314

direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0003723

RNA binding

PMID:11285240[6]

ECO:0000314

direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0003690

double-stranded DNA binding

PMID:7745706[5]

ECO:0000314

direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0003723

RNA binding

PMID:22681889[7]

ECO:0007005

high throughput direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

enables

GO:0003723

RNA binding

PMID:22658674[8]

ECO:0007005

high throughput direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

part_of

GO:1990904

ribonucleoprotein complex

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

FB:FBgn0001215
FB:FBgn0004237
FB:FBgn0004838
MGI:MGI:1916394
PANTHER:PTN002689974
UniProtKB:P09651
UniProtKB:P19338
UniProtKB:P22626
UniProtKB:Q14103
UniProtKB:Q96EP5
UniProtKB:Q99729

C

Seeded From UniProt

complete

involved_in

GO:0070935

3'-UTR-mediated mRNA stabilization

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

PANTHER:PTN002691014
UniProtKB:Q13148

P

Seeded From UniProt

complete

part_of

GO:0005737

cytoplasm

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

PANTHER:PTN002691014
RGD:1310906

C

Seeded From UniProt

complete

part_of

GO:0005654

nucleoplasm

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

PANTHER:PTN002691014
UniProtKB:Q13148

C

Seeded From UniProt

complete

enables

GO:0003730

mRNA 3'-UTR binding

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

PANTHER:PTN002691014
UniProtKB:Q13148

F

Seeded From UniProt

complete

enables

GO:0003727

single-stranded RNA binding

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

PANTHER:PTN002691014
WB:WBGene00006514

F

Seeded From UniProt

complete

enables

GO:0003723

RNA binding

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

MGI:MGI:104819
MGI:MGI:1330294
MGI:MGI:893588
MGI:MGI:97286
PANTHER:PTN002689974
RGD:1306751
RGD:1310403
RGD:1310906
RGD:3153
RGD:69234
SGD:S000003391
SGD:S000005483
TAIR:locus:2019622
TAIR:locus:2076096
TAIR:locus:2079874
TAIR:locus:2083810
TAIR:locus:2122009
TAIR:locus:2159401
TAIR:locus:2179939
UniProtKB:P19338
UniProtKB:P22626
UniProtKB:P38159
UniProtKB:P62995
UniProtKB:Q03250
UniProtKB:Q13148
UniProtKB:Q14103
UniProtKB:Q9SVM8

F

Seeded From UniProt

complete

enables

GO:0003690

double-stranded DNA binding

PMID:21873635[9]

ECO:0000318

biological aspect of ancestor evidence used in manual assertion

PANTHER:PTN002691014
UniProtKB:Q13148

F

Seeded From UniProt

complete

enables

GO:0042802

identical protein binding

PMID:26735904[10]

ECO:0000353

physical interaction evidence used in manual assertion

UniProtKB:Q13148

F

Seeded From UniProt

complete

enables

GO:0042802

identical protein binding

PMID:26099433[11]

ECO:0000353

physical interaction evidence used in manual assertion

UniProtKB:Q13148

F

Seeded From UniProt

complete

enables

GO:0042802

identical protein binding

PMID:23384725[12]

ECO:0000353

physical interaction evidence used in manual assertion

UniProtKB:Q13148

F

Seeded From UniProt

complete

enables

GO:0042802

identical protein binding

PMID:22193716[13]

ECO:0000353

physical interaction evidence used in manual assertion

UniProtKB:Q13148

F

Seeded From UniProt

complete

enables

GO:0042802

identical protein binding

PMID:21666678[14]

ECO:0000353

physical interaction evidence used in manual assertion

UniProtKB:Q13148

F

Seeded From UniProt

complete

enables

GO:0042802

identical protein binding

PMID:19383787[15]

ECO:0000353

physical interaction evidence used in manual assertion

UniProtKB:Q13148

F

Seeded From UniProt

complete

part_of

GO:0005654

nucleoplasm

GO_REF:0000052

ECO:0000314

direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

involved_in

GO:0006355

regulation of transcription, DNA-templated

GO_REF:0000108

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

GO_REF:0000108

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

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

C

Seeded From UniProt

complete

involved_in

GO:0034976

response to endoplasmic reticulum stress

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

P

Seeded From UniProt

complete

involved_in

GO:0032024

positive regulation of insulin secretion

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

P

Seeded From UniProt

complete

part_of

GO:0016607

nuclear speck

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

C

Seeded From UniProt

complete

part_of

GO:0005737

cytoplasm

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

C

Seeded From UniProt

complete

part_of

GO:0005726

perichromatin fibrils

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

C

Seeded From UniProt

complete

part_of

GO:0005634

nucleus

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

C

Seeded From UniProt

complete

enables

GO:0003723

RNA binding

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:I6L9G6
ensembl:ENSRNOP00000041889

F

Seeded From UniProt

complete

enables

GO:1990837

sequence-specific double-stranded DNA binding

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:Q921F2
ensembl:ENSMUSP00000081142

F

Seeded From UniProt

complete

involved_in

GO:0042752

regulation of circadian rhythm

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:Q921F2
ensembl:ENSMUSP00000081142

P

Seeded From UniProt

complete

involved_in

GO:0042307

positive regulation of protein import into nucleus

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:Q921F2
ensembl:ENSMUSP00000081142

P

Seeded From UniProt

complete

involved_in

GO:0031647

regulation of protein stability

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:Q921F2
ensembl:ENSMUSP00000081142

P

Seeded From UniProt

complete

part_of

GO:0005634

nucleus

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:Q921F2
ensembl:ENSMUSP00000081142

C

Seeded From UniProt

complete

enables

GO:0001228

DNA-binding transcription activator activity, RNA polymerase II-specific

GO_REF:0000107

ECO:0000265

sequence orthology evidence used in automatic assertion

UniProtKB:Q921F2
ensembl:ENSMUSP00000081142

F

Seeded From UniProt

complete

enables

GO:0003676

nucleic acid binding

GO_REF:0000002

ECO:0000256

match to sequence model evidence used in automatic assertion

InterPro:IPR000504
InterPro:IPR035979

F

Seeded From UniProt

complete

involved_in

GO:0006366

transcription by RNA polymerase II

PMID:7745706[5]

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

PMID:7745706[5]

ECO:0000304

author statement supported by traceable reference used in manual assertion

F

Seeded From UniProt

complete

involved_in

GO:0048511

rhythmic process

GO_REF:0000037

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0090

P

Seeded From UniProt

complete

part_of

GO:0005737

cytoplasm

GO_REF:0000037
GO_REF:0000039

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0963
UniProtKB-SubCell:SL-0086

C

Seeded From UniProt

complete

involved_in

GO:0008380

RNA splicing

GO_REF:0000037

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0508

P

Seeded From UniProt

complete

involved_in

GO:0006397

mRNA processing

GO_REF:0000037

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0507

P

Seeded From UniProt

complete

part_of

GO:0005634

nucleus

GO_REF:0000037
GO_REF:0000039

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0539
UniProtKB-SubCell:SL-0191

C

Seeded From UniProt

complete

enables

GO:0003723

RNA binding

GO_REF:0000037

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0694

F

Seeded From UniProt

complete

enables

GO:0003677

DNA binding

GO_REF:0000037

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-KW:KW-0238

F

Seeded From UniProt

complete

part_of

GO:0010494

cytoplasmic stress granule

GO_REF:0000039

ECO:0000322

imported manually asserted information used in automatic assertion

UniProtKB-SubCell:SL-0496

C

Seeded From UniProt

complete

Notes

References

See Help:References for how to manage references in GONUTS.

  1. 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
  2. Gu, J et al. (2017) TDP-43 suppresses tau expression via promoting its mRNA instability. Nucleic Acids Res. PubMed GONUTS page
  3. 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. 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. 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. 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
  7. 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
  8. 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. 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
  10. 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
  11. 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
  12. 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
  13. 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
  14. 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
  15. 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