LCB2 serine C-palmitoyltransferase LCB2 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: LCB2
Official Full Name: serine C-palmitoyltransferase LCB2
Primary source: SGD:S000002469
Locus tag: YDR062W
See related: AllianceGenome:SGD:S000002469; FungiDB:YDR062W; VEuPathDB:YDR062W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: SCS1; TSC1
Summary: Enables serine C-palmitoyltransferase activity. Involved in sphingolipid biosynthetic process. Located in endoplasmic reticulum. Part of serine palmitoyltransferase complex. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 1C. Orthologous to human SPTLC2 (serine palmitoyltransferase long chain base subunit 2) and SPTLC3 (serine palmitoyltransferase long chain base subunit 3). [provided by Alliance of Genome Resources, Jan 2025]
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Genomic context

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See LCB2 in Genome Data Viewer

Location:: chromosome: IV

Exon count:: 1

Sequence:: Chromosome: IV; NC_001136.10 (576474..578159)

Chromosome IV - NC_001136.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001136.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Expression of DspA/E down-regulated sphingolipid biosynthesis and serine palmitoyltransferase.
Title: Expression of the bacterial type III effector DspA/E in Saccharomyces cerevisiae down-regulates the sphingolipid biosynthetic pathway leading to growth arrest.

Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables acyltransferase activity	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation more info
enables serine C-palmitoyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in ceramide biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in sphingolipid biosynthetic process	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

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

General protein information

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Preferred Names: serine C-palmitoyltransferase LCB2

NP_010347.1

EC 2.3.1.50

Serine palmitoyltransferase component; responsible along with Lcb1p for the first committed step in sphingolipid synthesis, which is the condensation of serine with palmitoyl-CoA to form 3-ketosphinganine

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001136.10 Reference assembly

Range

576474..578159

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001180370.1 → NP_010347.1 TPA: serine C-palmitoyltransferase LCB2 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_010347.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VS48, P40970, Q66RG8

UniProtKB/TrEMBL

A6ZY27, B3LGK8, B5VFW1, C7GVS4, C8Z4Y1, G2WAG6, N1P676

Conserved Domains (1) summary

cl18945
Location:57 → 525

AAT_I; Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the ...