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AT4G29830.1
Subcellular Consensus
(Prediction and Experimental)
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SUBAcon:
nucleus 1.000
What is SUBAcon?
Experimental Localisations and PPI
FP MS/MS PPI
  • PMID:30961429 (2019): nucleus
  • PMID:29104584 (2017): nucleus nuclear matrix nucleolus
  • PMID:28865150 (2017): extracellular region plant-type cell wall
  • PMID:24134884 (2013): cytoskeleton microtubules
  • PMID:24012629 (2013): nucleus
  • PMID:22550958 (2012): plastid
  • PMID:21166475 (2011): cytosol
SUBAcon links
AGI-AGI relationships
Coexpression PPI
no PPI data
Description (TAIR10) protein_coding : Transducin/WD40 repeat-like superfamily protein
Curator
Summary (TAIR10)
The protein is composed of repeats of WD motif which is involved in protein complex formation. The gene is involved in flower timing and flower development. This gene is predicted to encode a protein with a DWD motif. It can bind to DDB1a in Y2H assays, and DDB1b in co-IP assays, and may be involved in the formation of a CUL4-based E3 ubiquitin ligase. Loss of gene function leads to a redistribution of H3K4me3 and K3K36me2 modifications within genes but not a change in the overall abundance of these modifications within chromatin.
Computational
Description (TAIR10)
vernalization independence 3 (VIP3); FUNCTIONS IN: protein binding, nucleotide binding; INVOLVED IN: histone H3-K4 methylation, histone H3-K36 methylation, negative regulation of flower development; LOCATED IN: CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), WD40 repeat, conserved site (InterPro:IPR019775), WD40 repeat (InterPro:IPR001680), G-protein beta WD-40 repeat, region (InterPro:IPR020472), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: WD-40 repeat family protein / small nuclear ribonucleoprotein Prp4p-related (TAIR:AT2G41500.1); Has 81424 Blast hits to 33679 proteins in 849 species: Archae - 94; Bacteria - 9736; Metazoa - 32144; Fungi - 18699; Plants - 10476; Viruses - 0; Other Eukaryotes - 10275 (source: NCBI BLink).
Protein Annotations
eggNOG:ENOG410XP1ZeggNOG:KOG4155EMBL:AL050352EMBL:AL161575
EMBL:BT008333EMBL:CP002687EnsemblPlants:AT4G29830EnsemblPlants:AT4G29830.1
entrez:829105Gene3D:2.130.10.10GeneID:829105Genevisible:Q9SZQ5
GO:GO:0005634GO:GO:0005829GO:GO:0006351GO:GO:0006355
GO:GO:0009908GO:GO:0009910GO:GO:0010452GO:GO:0016593
GO:GO:0051568GO:GO:0080008Gramene:AT4G29830.1hmmpanther:PTHR22847
HOGENOM:HOG000036765IntAct:Q9SZQ5InterPro:IPR001680InterPro:IPR015943
InterPro:IPR017986InterPro:IPR019775InterPro:IPR020472InterPro:IPR024977
KEGG:ath:AT4G29830KO:K12602OMA:GMQFEPKPaxDb:Q9SZQ5
Pfam:PF00400Pfam:PF12894Pfam:Q9SZQ5Pfscan:PS50082
Pfscan:PS50294PhylomeDB:Q9SZQ5PIR:T08544PRINTS:PR00320
PRO:PR:Q9SZQ5PROSITE:PS00678PROSITE:PS50082PROSITE:PS50294
ProteinModelPortal:Q9SZQ5Proteomes:UP000006548RefSeq:NP_194712.1scanprosite:PS00678
SMART:SM00320SMR:Q9SZQ5STRING:3702.AT4G29830.1SUPFAM:SSF50978
TAIR:AT4G29830tair10-symbols:VIP3UniGene:At.23602UniGene:At.72983
UniProt:Q9SZQ5
Coordinates (TAIR10) chr4:+:14597728..14599157
Molecular Weight (calculated) 34261.50 Da
IEP (calculated) 6.24
GRAVY (calculated) -0.11
Length 321 amino acids
Sequence (TAIR10)
(BLAST)
001: MKLAGLKSIE NAHEDSVWAA TWVPATEDRP ALLLTGSLDE TVKLWRPDEL DLVRTNTGHS LGVAALAAHP SGIIAASSSI DSFVRVFDVD TNATIAVLEA
101: PPSEVWGMQF EPKGTILAVA GGSSASVKLW DTASWRLIST LSIPRPDAPK PSDKTSSKKF VLSVAWSPNG KRLACGSMDG TICVFDVDRS KLLHQLEGHN
201: MPVRSLVFSP VDPRVLFSGS DDGHVNMHDA EGKTLLGSMS GHTSWVLSVD ASPDGGAIAT GSSDRTVRLW DLKMRAAIQT MSNHNDQVWS VAFRPPGGTG
301: VRAGRLASVS DDKSVSLYDY S
See Also
Citation
If you find this resource useful please cite one of the following publications:

Hooper CM, Castleden I, Tanz SK, Aryamanesh, and Millar, AH (2017) SUBA4: the interactive data analysis centre for Arabidopsis subcellular protein locations Nucleic Acids Res. Jan 4;45(D1):D1064-D1074. doi: 10.1093/nar/gkw1041 (PubMed)

Hooper CM, Tanz SK, Castleden IR, Vacher MA, Small ID, Millar AH (2014) "SUBAcon: a consensus algorithm for unifying the subcellular localization data of the Arabidopsis proteome. Bioinformatics." 1;30(23):3356-64. (Bioinformatics) (PubMed)