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Protein

Long chain base biosynthesis protein 2b

Gene

LCB2b

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Serine palmitoyltransferase (SPT). The heterodimer formed with LCB1 constitutes the catalytic core. Plays an important role during male gametogenesis and embryogenesis.1 Publication

Catalytic activityi

Palmitoyl-CoA + L-serine = CoA + 3-dehydro-D-sphinganine + CO2.

Cofactori

Pathwayi: sphingolipid metabolism

This protein is involved in the pathway sphingolipid metabolism, which is part of Lipid metabolism.
View all proteins of this organism that are known to be involved in the pathway sphingolipid metabolism and in Lipid metabolism.

GO - Molecular functioni

  • pyridoxal phosphate binding Source: InterPro
  • serine C-palmitoyltransferase activity Source: UniProtKB

GO - Biological processi

  • photomorphogenesis Source: TAIR
  • pollen development Source: TAIR
  • sphingolipid biosynthetic process Source: TAIR

Keywordsi

Molecular functionAcyltransferase, Transferase
Biological processLipid metabolism, Sphingolipid metabolism
LigandPyridoxal phosphate

Enzyme and pathway databases

BioCyciARA:AT3G48780-MONOMER
UniPathwayiUPA00222

Names & Taxonomyi

Protein namesi
Recommended name:
Long chain base biosynthesis protein 2b (EC:2.3.1.50)
Short name:
AtLCB2b
Alternative name(s):
Serine palmitoyltransferase 1
Short name:
AtSPT1
Gene namesi
Name:LCB2b
Synonyms:LCB2.2, SPT1
Ordered Locus Names:At3g48780
ORF Names:T21J18_50
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

AraportiAT3G48780
TAIRilocus:2099428 AT3G48780

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei2 – 22HelicalSequence analysisAdd BLAST21

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

Pathology & Biotechi

Disruption phenotypei

No visible phenotype. Lcb2a and lcb2b double mutant is not viable due to pollen lethality.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004191461 – 489Long chain base biosynthesis protein 2bAdd BLAST489

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei311N6-(pyridoxal phosphate)lysineBy similarity1

Proteomic databases

PaxDbiQ9M304

Expressioni

Tissue specificityi

Ubiquitous with the highest expression in flowers.1 Publication

Developmental stagei

In young flower buds was initially restricted to developing pollen spores within the stamen and is not detected in the petals, glumes or petiole until the flowers are mature.1 Publication

Gene expression databases

ExpressionAtlasiQ9M304 baseline and differential
GenevisibleiQ9M304 AT

Interactioni

Subunit structurei

Heterodimer with LCB1. Component of the serine palmitoyltransferase (SPT) complex, composed of LCB1 and LCB2 (LCB2a or LCB2b).1 Publication

Protein-protein interaction databases

STRINGi3702.AT3G48780.1

Structurei

3D structure databases

ProteinModelPortaliQ9M304
SMRiQ9M304
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1357 Eukaryota
COG0156 LUCA
HOGENOMiHOG000206826
InParanoidiQ9M304
KOiK00654
OMAiTLNMSSY
OrthoDBiEOG0936074X
PhylomeDBiQ9M304

Family and domain databases

Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 2 hits
InterProiView protein in InterPro
IPR001917 Aminotrans_II_pyridoxalP_BS
IPR004839 Aminotransferase_I/II
IPR015424 PyrdxlP-dep_Trfase
IPR015422 PyrdxlP-dep_Trfase_dom1
IPR015421 PyrdxlP-dep_Trfase_major
PfamiView protein in Pfam
PF00155 Aminotran_1_2, 1 hit
SUPFAMiSSF53383 SSF53383, 1 hit
PROSITEiView protein in PROSITE
PS00599 AA_TRANSFER_CLASS_2, 1 hit

Sequencei

Sequence statusi: Complete.

Q9M304-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MITIPYLTAV STYFSYGLLF AFGQLRDYSR LIFDWWRTNN LQGYAPICLA
60 70 80 90 100
HEDFYIRRLY HRIQDCFGRP ISSAPDAWID VVERVSDDNN KTLKRTTKTS
110 120 130 140 150
RCLNLGSYNY LGFGSFDEYC TPRVIESLKK FSASTCSSRV DAGTTSVHAE
160 170 180 190 200
LEDCVAKYVG QPAAVIFGMG YATNSAIIPV LIGKGGLIIS DSLNHTSIVN
210 220 230 240 250
GARGSGATIR VFQHNTPGHL EKVLKEQIAE GQPRTHRPWK KIIVVVEGIY
260 270 280 290 300
SMEGEICHLP EIVSICKKYK AYVYLDEAHS IGAIGKTGRG VCELLGVDTS
310 320 330 340 350
DVDIMMGTFT KSFGSCGGYI AGSKDLIQYL KHQCPAHLYA TSISTPSATQ
360 370 380 390 400
IISAIKVILG EDGSNRGAQK LARIRENSNF FRAELQKMGF EVLGDNDSPV
410 420 430 440 450
MPIMLYNPAK IPAFSRECLR ENLAVVVVGF PATPLLLARA RICISASHSR
460 470 480
EDLIKALQVI SKAGDLTGIK YFPAAPKKQE VEKNGIKLD
Length:489
Mass (Da):53,863
Last modified:October 1, 2000 - v1
Checksum:iBE059A00F5632105
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB074928 mRNA Translation: BAB78461.1
AL132963 Genomic DNA Translation: CAB87906.1
CP002686 Genomic DNA Translation: AEE78455.1
CP002686 Genomic DNA Translation: ANM63778.1
AY054489 mRNA Translation: AAK96680.1
AY059882 mRNA Translation: AAL24364.1
AY114662 mRNA Translation: AAM47981.1
BT006615 mRNA Translation: AAP31959.1
AK229667 mRNA Translation: BAF01511.1
PIRiT49274
RefSeqiNP_001325849.1, NM_001339379.1
NP_190447.1, NM_114737.5
UniGeneiAt.1379
At.75040

Genome annotation databases

EnsemblPlantsiAT3G48780.1; AT3G48780.1; AT3G48780
AT3G48780.2; AT3G48780.2; AT3G48780
GeneIDi824039
GrameneiAT3G48780.1; AT3G48780.1; AT3G48780
AT3G48780.2; AT3G48780.2; AT3G48780
KEGGiath:AT3G48780

Similar proteinsi

Entry informationi

Entry nameiLCB2B_ARATH
AccessioniPrimary (citable) accession number: Q9M304
Secondary accession number(s): Q0WMY9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 3, 2012
Last sequence update: October 1, 2000
Last modified: April 25, 2018
This is version 123 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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