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AT4G38130.1
Subcellular Consensus
(Prediction and Experimental)

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SUBAcon:
nucleus 1.000
ASURE: nucleus
What is SUBAcon?
What is ASURE?
SUBAcon computations
Experimental Localisations and PPI
FP MS/MS PPI
  • PMID:25900983 (2015): Golgi
  • PMID:25900983 (2015): Golgi Golgi apparatus Golgi membrane
  • PMID:25900983 (2015): Golgi trans-Golgi network
SUBAcon links
AGI-AGI relationships
Coexpression PPI
Description (TAIR10) protein_coding : histone deacetylase 1
Curator
Summary (TAIR10)
Encodes a histone deacetylase that enhances AtERF7-mediated transcriptional repression. Binds SIM3 and ERF7. Expressed in the nucleus in most tissues examined and throughout the life of the plant. Involved in jasmonic acid and ethylene dependent pathogen resistance. The sequence in GenBank has 17 AG dinucleotide repeats missing, which is also missing in Ler shotgun sequence from Cereon. Although it is annotated to be in Columbia, the GB sequence is probably not of Columbia origin. Plays a role in embryogenesis as mutants grown at higher temperatures display abnormalities in the organization of the root and shoot. Plant lines expressing an RNAi construct targeted against HDA19 shows some resistance to agrobacterium-mediated root transformation.
Computational
Description (TAIR10)
histone deacetylase 1 (HD1); CONTAINS InterPro DOMAIN/s: Histone deacetylase (InterPro:IPR003084), Histone deacetylase superfamily (InterPro:IPR000286); BEST Arabidopsis thaliana protein match is: histone deacetylase 6 (TAIR:AT5G63110.1); Has 8765 Blast hits to 8554 proteins in 1452 species: Archae - 219; Bacteria - 3185; Metazoa - 1529; Fungi - 558; Plants - 480; Viruses - 0; Other Eukaryotes - 2794 (source: NCBI BLink).
Protein Annotations
BioCyc:ARA:AT4G38130-MONOMERBioCyc:ARA:GQT-1431-MONOMERBioGrid:15249BRENDA:3.5.1.98DIP:DIP-33483NEC:3.5.1.98eggNOG:COG0123
eggNOG:KOG1342EMBL:AF014824EMBL:AF195547EMBL:AK226389EMBL:AL035538EMBL:AL161593EMBL:AY093153
EMBL:BT008873EMBL:CP002687EnsemblPlants:AT4G38130EnsemblPlants:AT4G38130.1entrez:829969ExpressionAtlas:O22446Gene3D:3.40.800.20
GeneID:829969Genevisible:O22446GO:GO:0000118GO:GO:0004407GO:GO:0005634GO:GO:0006351GO:GO:0009294
GO:GO:0009405GO:GO:0009861GO:GO:0016573GO:GO:0032041GO:GO:0045892GO:GO:1902459GO:GO:2000026
hmmpanther:PTHR10625hmmpanther:PTHR10625:SF127HOGENOM:HOG000225180InParanoid:O22446IntAct:O22446InterPro:IPR000286InterPro:IPR003084
InterPro:IPR023801iPTMnet:O22446OMA:VSIRAHDPANTHER:PTHR10625PaxDb:O22446Pfam:O22446Pfam:PF00850
PhylomeDB:O22446PIR:T05640PIRSF:PIRSF037913PRIDE:O22446PRINTS:PR01270PRINTS:PR01271PRO:PR:O22446
ProteinModelPortal:O22446Proteomes:UP000006548RefSeq:NP_195526.1SMR:O22446STRING:3702.AT4G38130.1SUPFAM:SSF52768TAIR:AT4G38130
tair10-symbols:ATHD1tair10-symbols:ATHDA19tair10-symbols:HD1tair10-symbols:HDA1tair10-symbols:HDA19tair10-symbols:RPD3AUniGene:At.25069
UniProt:O22446
Coordinates (TAIR10) chr4:-:17896493..17899057
Molecular Weight (calculated) 56026.10 Da
IEP (calculated) 4.98
GRAVY (calculated) -0.52
Length 501 amino acids
Sequence (TAIR10)
(BLAST)
001: MDTGGNSLAS GPDGVKRKVC YFYDPEVGNY YYGQGHPMKP HRIRMTHALL AHYGLLQHMQ VLKPFPARDR DLCRFHADDY VSFLRSITPE TQQDQIRQLK
101: RFNVGEDCPV FDGLYSFCQT YAGGSVGGSV KLNHGLCDIA INWAGGLHHA KKCEASGFCY VNDIVLAILE LLKQHERVLY VDIDIHHGDG VEEAFYATDR
201: VMTVSFHKFG DYFPGTGHIQ DIGYGSGKYY SLNVPLDDGI DDESYHLLFK PIMGKVMEIF RPGAVVLQCG ADSLSGDRLG CFNLSIKGHA ECVKFMRSFN
301: VPLLLLGGGG YTIRNVARCW CYETGVALGV EVEDKMPEHE YYEYFGPDYT LHVAPSNMEN KNSRQMLEEI RNDLLHNLSK LQHAPSVPFQ ERPPDTETPE
401: VDEDQEDGDK RWDPDSDMDV DDDRKPIPSR VKREAVEPDT KDKDGLKGIM ERGKGCEVEV DESGSTKVTG VNPVGVEEAS VKMEEEGTNK GGAEQAFPPK
501: T
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)