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AT1G20580.1
Subcellular Consensus
(Prediction and Experimental)

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SUBAcon:
nucleus 0.627
What is SUBAcon?
What is ASURE?
SUBAcon computations
Experimental Localisations and PPI
FP MS/MS PPI
  • PMID:26572690 (2016): extracellular region plant-type cell wall
  • PMID:24134884 (2013): cytoskeleton microtubules
  • PMID:23396599 (2013): nucleus nuclear envelope nuclear inner membrane
  • PMID:21166475 (2011): cytosol
  • PMID:15496452 (2005): nucleus
SUBAcon links
AGI-AGI relationships
Coexpression PPI
no PPI data
Description (TAIR10) protein_coding : Small nuclear ribonucleoprotein family protein
Curator
Summary (TAIR10)
Computational
Description (TAIR10)
Small nuclear ribonucleoprotein family protein; FUNCTIONS IN: molecular_function unknown; LOCATED IN: nucleolus, nucleus, small nucleolar ribonucleoprotein complex; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Like-Sm ribonucleoprotein (LSM) domain (InterPro:IPR001163), Like-Sm ribonucleoprotein (LSM) domain, eukaryotic/archaea-type (InterPro:IPR006649), Like-Sm ribonucleoprotein (LSM)-related domain (InterPro:IPR010920); BEST Arabidopsis thaliana protein match is: snRNP core protein SMD3 (TAIR:AT1G76300.1); Has 1253 Blast hits to 1253 proteins in 229 species: Archae - 0; Bacteria - 0; Metazoa - 480; Fungi - 336; Plants - 223; Viruses - 0; Other Eukaryotes - 214 (source: NCBI BLink).
Protein Annotations
eggNOG:COG1958eggNOG:KOG3172EMBL:AC027665EMBL:AC069251EMBL:AF412086EMBL:AY086797EMBL:AY093974
EMBL:CP002684EnsemblPlants:AT1G20580EnsemblPlants:AT1G20580.1entrez:838647GeneID:838647Genevisible:Q9LM92GO:GO:0000398
GO:GO:0003723GO:GO:0005681GO:GO:0005730GO:GO:0005829GO:GO:0048589Gramene:AT1G20580.1hmmpanther:PTHR23338
InParanoid:Q9LM92InterPro:IPR001163InterPro:IPR010920InterPro:IPR027141iPTMnet:Q9LM92KEGG:ath:AT1G20580KO:K11088
OMA:KETKMDSPANTHER:PTHR23338PaxDb:Q9LM92Pfam:PF01423Pfam:Q9LM92PhylomeDB:Q9LM92PRIDE:Q9LM92
PRO:PR:Q9LM92ProteinModelPortal:Q9LM92Proteomes:UP000006548Reactome:R-ATH-72163Reactome:R-ATH-72165RefSeq:NP_564119.1SMART:SM00651
SMR:Q9LM92STRING:3702.AT1G20580.1SUPFAM:SSF50182TAIR:AT1G20580UniGene:At.15483UniGene:At.51694UniGene:At.73171
UniProt:Q9LM92
Coordinates (TAIR10) chr1:+:7128979..7130371
Molecular Weight (calculated) 14238.50 Da
IEP (calculated) 10.96
GRAVY (calculated) -0.35
Length 131 amino acids
Sequence (TAIR10)
(BLAST)
001: MSRSLGIPVK LLHEASGHIV TVELKSGELY RGSMIECEDN WNCQLEDITY TAKDGKVSQL EHVFIRGSKV RFMVIPDILK HAPMFKRLDA RIKGKSSSLG
101: VGRGRGAMRG KPAAGPGRGT GGRGAVPPVR R
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)