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Protein

Long chain base biosynthesis protein 2d

Gene

Os01g0928800

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

Serine palmitoyltransferase (SPT). The heterodimer formed with LCB1 constitutes the catalytic core (By similarity).By similarity

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

Keywordsi

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

Enzyme and pathway databases

UniPathwayiUPA00222

Names & Taxonomyi

Protein namesi
Recommended name:
Long chain base biosynthesis protein 2d (EC:2.3.1.50)
Gene namesi
Ordered Locus Names:Os01g0928800, LOC_Os01g70380
ORF Names:OsJ_04635, OSJNBa0052O12.15
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryzaOryza sativa
Proteomesi
  • UP000059680 Componenti: Chromosome 1

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
Transmembranei4 – 24HelicalSequence analysisAdd BLAST21

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004191531 – 489Long chain base biosynthesis protein 2dAdd BLAST489

Amino acid modifications

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

Proteomic databases

PaxDbiQ5JK39

Expressioni

Gene expression databases

ExpressionAtlasiQ5JK39 differential
GenevisibleiQ5JK39 OS

Interactioni

Subunit structurei

Heterodimer with LCB1. Component of the serine palmitoyltransferase (SPT) complex, composed of LCB1 and LCB2 (By similarity).By similarity

Protein-protein interaction databases

STRINGi39947.LOC_Os01g70380.1

Structurei

3D structure databases

ProteinModelPortaliQ5JK39
SMRiQ5JK39
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1357 Eukaryota
COG0156 LUCA
InParanoidiQ5JK39
KOiK00654
OMAiYPVIPKG
OrthoDBiEOG0936074X

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.

Q5JK39-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVRLPYVTAL TTLFSYGLLF AFGQLRDFFR RILDAGKSSN LKGYAPICLG
60 70 80 90 100
LEDFYTRRLY LRIQDCFGRP IASAPDAWFD VVERYSNDSN KTLHRTTKTS
110 120 130 140 150
KCLNLGSYNY LGFAAADEYC TPRVIESLKK YSASTCSVRV DGGNTKLHVE
160 170 180 190 200
LEELVARFVG KPAAILFGMG YVTNSAIIPA LVGKGGLIIS DSLNHNSIVN
210 220 230 240 250
GARGSGATVR VFQHNNPAHL EEVLREQIAG GQPRTHRPWK KIIVIVEGIY
260 270 280 290 300
SMEGELCKLP EVIAVCKKYK AYTYLDEAHS IGAVGKTGRG VCELLGVDPA
310 320 330 340 350
DVDIMMGTFT KSFGSCGGYI AASKEIIDHL KHICPAHIYA TSMSPPAVQQ
360 370 380 390 400
VISAIKVILG EDGSNRGAKK LAQIRENSNF FRSELQKMGF EVLGDNDSPV
410 420 430 440 450
MPIMLYNPAK IPAFSRECLR QHVAVVTVAF PATPLLLARA RICISASHSR
460 470 480
EDLIKGLEVI SKVGDLVGIK YFPVEHEKTA SVEKLKKLQ
Length:489
Mass (Da):53,700
Last modified:February 15, 2005 - v1
Checksum:i9CCA90E8891B245B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP004330 Genomic DNA Translation: BAD88168.1
AP008207 Genomic DNA Translation: BAF07193.1
AP014957 Genomic DNA Translation: BAS76016.1
CM000138 Genomic DNA Translation: EEE55940.1
AK120617 mRNA Translation: BAH00095.1
RefSeqiXP_015613397.1, XM_015757911.1
UniGeneiOs.22885

Genome annotation databases

EnsemblPlantsiOs01t0928800-01; Os01t0928800-01; Os01g0928800
GeneIDi4326966
GrameneiOs01t0928800-01; Os01t0928800-01; Os01g0928800
KEGGiosa:4326966

Similar proteinsi

Entry informationi

Entry nameiLCB2D_ORYSJ
AccessioniPrimary (citable) accession number: Q5JK39
Secondary accession number(s): A0A0P0VCB6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 3, 2012
Last sequence update: February 15, 2005
Last modified: May 23, 2018
This is version 94 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

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  3. SIMILARITY comments
    Index of protein domains and families

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