suba logo
AT4G36480.1
Subcellular Consensus
(Prediction and Experimental)
min: heatmap :max

.
SUBAcon:
endoplasmic reticulum 1.000
What is SUBAcon?
Experimental Localisations and PPI
FP MS/MS PPI
  • PMID:31520498 (2020): mitochondrion
  • PMID:25900983 (2015): Golgi
  • PMID:25900983 (2015): Golgi trans-Golgi network
  • PMID:25900983 (2015): Golgi trans-Golgi network early endosome
  • PMID:25900983 (2015): Golgi trans-Golgi network multivesicular body
  • PMID:25641898 (2015): plasma membrane
  • PMID:22923678 (2012): endoplasmic reticulum
  • PMID:19334764 (2009): plasma membrane
  • PMID:16618929 (2006): endoplasmic reticulum
  • PMID:15295017 (2004): endoplasmic reticulum
SUBAcon links
AGI-AGI relationships
Coexpression PPI
Description (TAIR10) protein_coding : long-chain base1
Curator
Summary (TAIR10)
Encodes the LCB1 subunit of serine palmitoyltransferase. Together with the LCB2 subunit, forms a functional serine palmitoyltransferase complex, which catalyzes the first reaction of sphingolipid biosynthesis. Knockout of LCB1 was embryo lethal. Partial suppression of LCB1 expression led to smaller plants due to reduced cell expansion.
Computational
Description (TAIR10)
long-chain base1 (LCB1); FUNCTIONS IN: protein binding, serine C-palmitoyltransferase activity; INVOLVED IN: cell growth, sphingolipid biosynthetic process; LOCATED IN: endoplasmic reticulum; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 12 growth stages; CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Aminotransferase, class I/classII (InterPro:IPR004839), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: long chain base2 (TAIR:AT5G23670.2); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
Protein Annotations
BioCyc:ARA:AT4G36480-MONOMERBioCyc:ARA:GQT-1717-MONOMERBioCyc:MetaCyc:AT4G36480-MONOMERBioGrid:15082
EC:2.3.1.50eggNOG:COG0156eggNOG:KOG1358EMBL:AB063254
EMBL:AK317450EMBL:AL161589EMBL:AY120759EMBL:BT000131
EMBL:CP002687EMBL:Z99708EnsemblPlants:AT4G36480EnsemblPlants:AT4G36480.1
EnsemblPlants:AT4G36480.2entrez:829800Gene3D:3.40.640.10GeneID:829800
Genevisible:Q94IB8GO:GO:0004758GO:GO:0005783GO:GO:0005789
GO:GO:0006915GO:GO:0016021GO:GO:0016049GO:GO:0030148
GO:GO:0030170GO:GO:0043067Gramene:AT4G36480.1Gramene:AT4G36480.2
gramene_pathway:2.3.1.50gramene_pathway:PWY-5129gramene_plant_reactome:1119610gramene_plant_reactome:6875841
hmmpanther:PTHR13693hmmpanther:PTHR13693:SF2HOGENOM:HOG000216602InParanoid:Q94IB8
IntAct:Q94IB8InterPro:IPR004839InterPro:IPR015421InterPro:IPR015424
KEGG:ath:AT4G36480KO:K00654OMA:QKYKLRLPaxDb:Q94IB8
Pfam:PF00155Pfam:Q94IB8PhylomeDB:Q94IB8PIR:F85430
PRIDE:Q94IB8PRO:PR:Q94IB8ProteinModelPortal:Q94IB8Proteomes:UP000006548
Reactome:R-ATH-1660661RefSeq:NP_001031796.1RefSeq:NP_568005.1SMR:Q94IB8
STRING:3702.AT4G36480.1SUPFAM:SSF53383TAIR:AT4G36480tair10-symbols:ATLCB1
tair10-symbols:EMB2779tair10-symbols:FBR11tair10-symbols:LCB1UniGene:At.22137
UniPathway:UPA00222UniProt:Q94IB8
Coordinates (TAIR10) chr4:+:17218598..17221124
Molecular Weight (calculated) 53143.60 Da
IEP (calculated) 7.54
GRAVY (calculated) -0.00
Length 482 amino acids
Sequence (TAIR10)
(BLAST)
001: MASNLVEMFN AALNWVTMIL ESPSARVVLF GVPIRGHFFV EGLLGVVIII LLTRKSYKPP KRPLTEQEID ELCDEWVPEP LIPPITEDMK HEPPVLESAA
101: GPHTTVNGKD VVNFASANYL GLIGHEKLLE SCTSALEKYG VGSCGPRGFY GTIDVHLDCE TRISKFLGTP DSILYSYGLS TMFSTIPCFC KKGDVIVADE
201: GVHWGIQNGL QLSRSTIVYF KHNDMESLRI TLEKIMTKYK RSKNLRRYIV AEAVYQNSGQ IAPLDEIVKL KEKYRFRVIL DESNSFGVLG RSGRGLAEHH
301: SVPIEKIDVV TAAMGHALAT EGGFCTGNAR IIDYQRLSSS GYVFSASLPP YLASAAITAI DVIDQNPDML VKLKQNVALL WKGLSDIKGM SLTSNRESPI
401: VFLKLEKSSG SAKDDLLLLE KMADRALKED SLLVVSSKRS FLDKCRLPVG IKLYVSAGHS ESDLLKASES LKRLASELLL KS
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)