LCB2 long chain base2 [Arabidopsis thaliana (thale cress)] - Gene

Summary

Official Symbol: LCB2
Official Full Name: long chain base2
Primary source: TAIR:AT5G23670
Locus tag: AT5G23670
See related: Araport:AT5G23670
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: long chain base2; MQM1.6; MQM1_6; SERINE PALMITOYLTRANSFERASE
Summary: Encodes the LCB2 subunit of serine palmitoyltransferase, an enzyme involved in sphingosine biosynthesis. The protein is localized to the endoplasmic reticulum.
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Chromosome 5 - NC_003076.8 Genomic Context describing neighboring genes

Go to nucleotide: Graphics FASTA GenBank

T-DNA insertions in two homologous LCB2 genes showed a phenotype similar to fumonisin B(1) resistant11-2 mutant, an allele of lcb1-1.
Title: Serine palmitoyltransferase, a key enzyme for de novo synthesis of sphingolipids, is essential for male gametophyte development in Arabidopsis.
The roles of the LCB2a and LCB2b subunits in sphingolipid biosyntesis in A. thaliana were studied.
Title: Loss-of-function mutations and inducible RNAi suppression of Arabidopsis LCB2 genes reveal the critical role of sphingolipids in gametophytic and sporophytic cell viability.

Submit: New GeneRIF Correction

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

NM_001036855.1

NM_122272.3

Function	Evidence Code	Pubs
enables pyridoxal phosphate binding	IEA Inferred from Electronic Annotation more info
enables serine C-palmitoyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables serine C-palmitoyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables serine C-palmitoyltransferase activity	IEA Inferred from Electronic Annotation more info
enables serine C-palmitoyltransferase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in ceramide biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within photomorphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pollen development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of programmed cell death	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sphingolipid metabolic process	IEA Inferred from Electronic Annotation more info
involved_in sphingosine biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within sphingosine biosynthetic process	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in chloroplast	ISM Inferred from Sequence Model more info
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
part_of serine palmitoyltransferase complex	IBA Inferred from Biological aspect of Ancestor more info
located_in vacuole	HDA more info	PubMed

NP_001031932.1

long chain base2 (LCB2); CONTAINS InterPro DOMAIN/s: Aminotransferase, class I/classII (InterPro:IPR004839), Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Aminotransferase, class-II, pyridoxal-phosphate binding site (InterPro:IPR001917), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: serine palmitoyltransferase 1 (TAIR:AT3G48780.1); Has 10446 Blast hits to 10416 proteins in 2172 species: Archae - 77; Bacteria - 7037; Metazoa - 738; Fungi - 589; Plants - 234; Viruses - 9; Other Eukaryotes - 1762 (source: NCBI BLink).

NP_197756.1

long chain base2 (LCB2); FUNCTIONS IN: protein binding, serine C-palmitoyltransferase activity; INVOLVED IN: photomorphogenesis, sphingosine biosynthetic process, sphingolipid biosynthetic process, pollen development; LOCATED IN: endoplasmic reticulum, vacuole, membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Aminotransferase, class I/classII (InterPro:IPR004839), Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Aminotransferase, class-II, pyridoxal-phosphate binding site (InterPro:IPR001917), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: serine palmitoyltransferase 1 (TAIR:AT3G48780.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).