Gene/Proteome Database (LMPD)

LMPD ID
LMP010570
Gene ID
829800
Species
Arabidopsis thaliana (Arabidopsis)
Gene Name
serine palmitoyltransferase
Gene Symbol
LCB1
Synonyms
AP22.60; AP22_60; ATLCB1; EMB2779; EMBRYO DEFECTIVE 2779; FBR11; FUMONISIN B1 RESISTANT 11; LCB1; long-chain base1
Alternate Names
serine palmitoyltransferase
Chromosome
4
EC Number
2.3.1.50
Summary
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.
Orthologs
View orthologs and multiple alignments for LCB1

Proteins

serine palmitoyltransferase
Refseq ID NP_001031796
Protein GI 79326362
UniProt ID Q94IB8
mRNA ID NM_001036719
Length 482
RefSeq Status REVIEWED
MASNLVEMFNAALNWVTMILESPSARVVLFGVPIRGHFFVEGLLGVVIIILLTRKSYKPPKRPLTEQEIDELCDEWVPEPLIPPITEDMKHEPPVLESAAGPHTTVNGKDVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRGFYGTIDVHLDCETRISKFLGTPDSILYSYGLSTMFSTIPCFCKKGDVIVADEGVHWGIQNGLQLSRSTIVYFKHNDMESLRITLEKIMTKYKRSKNLRRYIVAEAVYQNSGQIAPLDEIVKLKEKYRFRVILDESNSFGVLGRSGRGLAEHHSVPIEKIDVVTAAMGHALATEGGFCTGNARIIDYQRLSSSGYVFSASLPPYLASAAITAIDVIDQNPDMLVKLKQNVALLWKGLSDIKGMSLTSNRESPIVFLKLEKSSGSAKDDLLLLEKMADRALKEDSLLVVSSKRSFLDKCRLPVGIKLYVSAGHSESDLLKASESLKRLASELLLKS
serine palmitoyltransferase
Refseq ID NP_568005
Protein GI 18419845
UniProt ID Q94IB8
mRNA ID NM_119811
Length 482
RefSeq Status REVIEWED
Protein sequence is identical to GI:79326362 (mRNA isoform)

Gene Information

Entrez Gene ID
829800
Gene Name
serine palmitoyltransferase
Gene Symbol
LCB1
Species
Arabidopsis thaliana

Gene Ontology (GO Annotations)

GO ID Source Type Description
GO:0005783 IDA:TAIR C endoplasmic reticulum
GO:0016021 IEA:UniProtKB-KW C integral component of membrane
GO:0030170 IEA:InterPro F pyridoxal phosphate binding
GO:0004758 IGI:TAIR F serine C-palmitoyltransferase activity
GO:0006915 IEA:UniProtKB-KW P apoptotic process
GO:0016049 IMP:TAIR P cell growth
GO:0043067 IMP:UniProtKB P regulation of programmed cell death
GO:0030148 TAS:TAIR P sphingolipid biosynthetic process

KEGG Pathway Links

KEGG Pathway ID Description
ath01100 Metabolic pathways
ath00600 Sphingolipid metabolism

REACTOME Pathway Links

REACTOME Pathway ID Description
6254191 Sphingolipid de novo biosynthesis
6254192 Sphingolipid metabolism

Domain Information

InterPro Annotations

Accession Description
IPR004839 Aminotransferase, class I/classII
IPR015424 Pyridoxal phosphate-dependent transferase
IPR015421 Pyridoxal phosphate-dependent transferase, major region, subdomain 1

UniProt Annotations

Entry Information

Gene Name
serine palmitoyltransferase
Protein Entry
LCB1_ARATH
UniProt ID
Q94IB8
Species
Arabidopsis

Comments

Comment Type Description
Catalytic Activity Palmitoyl-CoA + L-serine = CoA + 3-dehydro-D- sphinganine + CO(2).
Cofactor Name=pyridoxal 5'-phosphate; Xref=ChEBI:CHEBI:597326; Evidence={ECO:0000250};
Disruption Phenotype Defective Embryo and pollen lethality. RNAi mutants display plant size reduction, altered leaf morphology and increases in relative amounts of saturated sphingolipid long-chain bases. {ECO:0000269|PubMed:17194770, ECO:0000269|PubMed:18218968}.
Function Serine palmitoyltransferase (SPT). The heterodimer formed with LCB2 constitutes the catalytic core. Involved in the regulation of the programmed cell death (PCD) signaling pathway. Plays an important role during male gametogenesis and embryogenesis. {ECO:0000269|PubMed:17194770, ECO:0000269|PubMed:18059378, ECO:0000269|PubMed:18218968}.
Miscellaneous The fbr11-1 mutant is incapable of initiating programmed cell death (PCD) after induction by fumonisin B1 (FB1), a specific inhibitor of ceramide synthase.
Pathway Lipid metabolism; sphingolipid metabolism.
Sequence Caution Sequence=CAB16844.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAB80314.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
Similarity Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. {ECO:0000305}.
Subcellular Location Endoplasmic reticulum membrane {ECO:0000269|PubMed:17194770}; Single-pass membrane protein {ECO:0000269|PubMed:17194770}.
Subunit Heterodimer with LCB2 (LCB2a or LCB2b). Component of the serine palmitoyltransferase (SPT) complex, composed of LCB1 and LCB2 (LCB2a or LCB2b). {ECO:0000269|PubMed:17194770}.
Tissue Specificity Ubiquitous. {ECO:0000269|PubMed:17194770}.

Identical and Related Proteins

Unique RefSeq proteins for LMP010570 (as displayed in Record Overview)

Protein GI Database Accession Length Protein Name
79326362 RefSeq NP_001031796 482 serine palmitoyltransferase

Identical Sequences to LMP010570 proteins

Reference Database Accession Length Protein Name
GI:79326362 GenBank ACW85720.1 482 Sequence 1782 from patent US 7569389
GI:79326362 GenBank AEE86660.1 482 serine palmitoyltransferase [Arabidopsis thaliana]
GI:79326362 GenBank AEE86661.1 482 serine palmitoyltransferase [Arabidopsis thaliana]
GI:79326362 GenBank AFX48971.1 482 Sequence 50804 from patent US 8299318
GI:79326362 GenBank AGF14167.1 482 Sequence 13586 from patent US 8362325
GI:79326362 SwissProt Q94IB8.1 482 RecName: Full=Long chain base biosynthesis protein 1; Short=AtLCB1; AltName: Full=Protein EMBRYO DEFECTIVE 2779; AltName: Full=Protein FUMONISIN B1 RESISTANT 11 [Arabidopsis thaliana]

Related Sequences to LMP010570 proteins

Reference Database Accession Length Protein Name
GI:79326362 DBBJ BAH20117.1 482 AT4G36480 [Arabidopsis thaliana]
GI:79326362 EMBL CAB16844.1 475 serine C-palmitoyltransferase like protein [Arabidopsis thaliana]
GI:79326362 GenBank ACW85721.1 475 Sequence 1783 from patent US 7569389
GI:79326362 GenBank ACW85722.1 465 Sequence 1784 from patent US 7569389
GI:79326362 GenBank EFH43271.1 482 ATLCB1 [Arabidopsis lyrata subsp. lyrata]
GI:79326362 RefSeq XP_002867012.1 482 ATLCB1 [Arabidopsis lyrata subsp. lyrata]