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Protein

Long chain base biosynthesis protein 1

Gene

LCB1

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

Functioni

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.3 Publications

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.

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

GO - Biological processi

  • embryo development ending in seed dormancy Source: TAIR
  • multidimensional cell growth Source: TAIR
  • regulation of programmed cell death Source: UniProtKB
  • sphingolipid biosynthetic process Source: TAIR

Keywordsi

Molecular functionAcyltransferase, Transferase
Biological processApoptosis, Lipid metabolism, Sphingolipid metabolism
LigandPyridoxal phosphate

Enzyme and pathway databases

BioCyciARA:AT4G36480-MONOMER
MetaCyc:AT4G36480-MONOMER
UniPathwayiUPA00222

Names & Taxonomyi

Protein namesi
Recommended name:
Long chain base biosynthesis protein 1 (EC:2.3.1.50)
Short name:
AtLCB1
Alternative name(s):
Protein EMBRYO DEFECTIVE 2779
Protein FUMONISIN B1 RESISTANT 11
Gene namesi
Name:LCB1
Synonyms:EMB2779, FBR11
Ordered Locus Names:At4g36480
ORF Names:AP22, C7A10.880
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 4

Organism-specific databases

AraportiAT4G36480
TAIRilocus:2115350 AT4G36480

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
Transmembranei32 – 52HelicalSequence analysisAdd BLAST21

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

Pathology & Biotechi

Disruption phenotypei

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.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004191441 – 482Long chain base biosynthesis protein 1Add BLAST482

Proteomic databases

PaxDbiQ94IB8

Expressioni

Tissue specificityi

Ubiquitous.1 Publication

Gene expression databases

ExpressionAtlasiQ94IB8 baseline and differential
GenevisibleiQ94IB8 AT

Interactioni

Subunit structurei

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

Protein-protein interaction databases

BioGridi15082, 6 interactors
IntActiQ94IB8, 2 interactors
STRINGi3702.AT4G36480.1

Structurei

3D structure databases

ProteinModelPortaliQ94IB8
SMRiQ94IB8
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1358 Eukaryota
COG0156 LUCA
HOGENOMiHOG000216602
InParanoidiQ94IB8
KOiK00654
OMAiLGTEGCI
OrthoDBiEOG0936091M
PhylomeDBiQ94IB8

Family and domain databases

Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 2 hits
InterProiView protein in InterPro
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

Sequencei

Sequence statusi: Complete.

Q94IB8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASNLVEMFN AALNWVTMIL ESPSARVVLF GVPIRGHFFV EGLLGVVIII
60 70 80 90 100
LLTRKSYKPP KRPLTEQEID ELCDEWVPEP LIPPITEDMK HEPPVLESAA
110 120 130 140 150
GPHTTVNGKD VVNFASANYL GLIGHEKLLE SCTSALEKYG VGSCGPRGFY
160 170 180 190 200
GTIDVHLDCE TRISKFLGTP DSILYSYGLS TMFSTIPCFC KKGDVIVADE
210 220 230 240 250
GVHWGIQNGL QLSRSTIVYF KHNDMESLRI TLEKIMTKYK RSKNLRRYIV
260 270 280 290 300
AEAVYQNSGQ IAPLDEIVKL KEKYRFRVIL DESNSFGVLG RSGRGLAEHH
310 320 330 340 350
SVPIEKIDVV TAAMGHALAT EGGFCTGNAR IIDYQRLSSS GYVFSASLPP
360 370 380 390 400
YLASAAITAI DVIDQNPDML VKLKQNVALL WKGLSDIKGM SLTSNRESPI
410 420 430 440 450
VFLKLEKSSG SAKDDLLLLE KMADRALKED SLLVVSSKRS FLDKCRLPVG
460 470 480
IKLYVSAGHS ESDLLKASES LKRLASELLL KS
Length:482
Mass (Da):53,141
Last modified:December 1, 2001 - v1
Checksum:iCE23247C3F7ADE28
GO

Sequence cautioni

The sequence CAB16844 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence CAB80314 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti306K → E in BAH20117 (PubMed:19423640).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB063254 mRNA Translation: BAB60898.1
Z99708 Genomic DNA Translation: CAB16844.1 Sequence problems.
AL161589 Genomic DNA Translation: CAB80314.1 Sequence problems.
CP002687 Genomic DNA Translation: AEE86660.1
CP002687 Genomic DNA Translation: AEE86661.1
AY120759 mRNA Translation: AAM53317.1
BT000131 mRNA Translation: AAN15450.1
AK317450 mRNA Translation: BAH20117.1
PIRiF85430
RefSeqiNP_001031796.1, NM_001036719.2
NP_568005.1, NM_119811.3
UniGeneiAt.22137

Genome annotation databases

EnsemblPlantsiAT4G36480.1; AT4G36480.1; AT4G36480
AT4G36480.2; AT4G36480.2; AT4G36480
GeneIDi829800
GrameneiAT4G36480.1; AT4G36480.1; AT4G36480
AT4G36480.2; AT4G36480.2; AT4G36480
KEGGiath:AT4G36480

Similar proteinsi

Entry informationi

Entry nameiLCB1_ARATH
AccessioniPrimary (citable) accession number: Q94IB8
Secondary accession number(s): B9DHA0, O23233
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 3, 2012
Last sequence update: December 1, 2001
Last modified: April 25, 2018
This is version 117 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
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health