Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Long chain base biosynthesis protein 1a

Gene

Os03g0252800

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Serine palmitoyltransferase (SPT). The heterodimer formed with LCB2 constitutes the catalytic core (By similarity).By similarity

Catalytic activityi

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

Cofactori

Pathway:isphingolipid 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

Complete GO annotation...

Keywords - Molecular functioni

Acyltransferase, Transferase

Keywords - Biological processi

Lipid metabolism, Sphingolipid metabolism

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

ReactomeiREACT_273869. Sphingolipid de novo biosynthesis.
UniPathwayiUPA00222.

Names & Taxonomyi

Protein namesi
Recommended name:
Long chain base biosynthesis protein 1a (EC:2.3.1.50)
Gene namesi
Ordered Locus Names:Os03g0252800, LOC_Os03g14800
ORF Names:OsJ_10166
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
ProteomesiUP000000763 Componenti: Chromosome 3

Organism-specific databases

GrameneiQ10P01.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei32 – 5221HelicalSequence AnalysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 485485Long chain base biosynthesis protein 1aPRO_0000419147Add
BLAST

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi39947.LOC_Os03g14800.1.

Structurei

3D structure databases

ProteinModelPortaliQ10P01.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiCOG0156.
HOGENOMiHOG000120827.
InParanoidiQ10P01.
KOiK00654.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
InterProiIPR004839. Aminotransferase_I/II.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
[Graphical view]
PfamiPF00155. Aminotran_1_2. 1 hit.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 1 hit.

Sequencei

Sequence statusi: Complete.

Q10P01-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDMALPIVNA TAAVLARVSA AFNAPFARAV VFGVHIDGHL VVEGLLIAVI
60 70 80 90 100
VFQLSRKSYK PPKKPLSEKE IDELCDEWEP EPLCPPIKDG ARIDTPMLES
110 120 130 140 150
AAAPHTTIDG KEVINFASAN YLGLIGNEKI IDSCVGSLEK YGVGSCGPRG
160 170 180 190 200
FYGTIDVHLD CEAKIAKFLG TPDSILYSYG ISTIFSVIPA FCKKGDIIVA
210 220 230 240 250
DEGVHWAVQN GLHLSRSTVV YFKHNDMASL ANTLEKLTRG NKRAEKIRRY
260 270 280 290 300
IVVESIYQNS GQIAPLDEIV RLKEKYRFRV ILEESHSFGV LGQSGRGLAE
310 320 330 340 350
HYGVPIDKID IITAGMGNAL ATDGGFCTGS VRVVDHQRLS SSGYVFSASL
360 370 380 390 400
PPYLASAAVS AVSYLEGNPS VLADLRSNIS FLHKELSGTP GLEISSHVLS
410 420 430 440 450
PIVFLKLKKS TGSSNTDIDL LETIAERVLK EDSVFIVASK RSPLDRCKLP
460 470 480
VGIRLFMSAG HTDSDISKVS SSLKRVSASV LSDYI
Length:485
Mass (Da):52,426
Last modified:August 22, 2006 - v1
Checksum:iCC3E17D2310E76CF
GO

Sequence cautioni

The sequence ABF95003.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence ABF95004.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence ABF95005.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DP000009 Genomic DNA. Translation: ABF95002.1.
DP000009 Genomic DNA. Translation: ABF95003.1. Sequence problems.
DP000009 Genomic DNA. Translation: ABF95004.1. Sequence problems.
DP000009 Genomic DNA. Translation: ABF95005.1. Sequence problems.
AP008209 Genomic DNA. Translation: BAF11490.1.
CM000140 Genomic DNA. Translation: EAZ26297.1.
AK065537 mRNA. Translation: BAG89556.1.
AK067765 mRNA. Translation: BAG90585.1.
RefSeqiNP_001049576.1. NM_001056111.1.
UniGeneiOs.8513.

Genome annotation databases

EnsemblPlantsiOS03T0252800-01; OS03T0252800-01; OS03G0252800.
GeneIDi4332274.
KEGGiosa:4332274.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DP000009 Genomic DNA. Translation: ABF95002.1.
DP000009 Genomic DNA. Translation: ABF95003.1. Sequence problems.
DP000009 Genomic DNA. Translation: ABF95004.1. Sequence problems.
DP000009 Genomic DNA. Translation: ABF95005.1. Sequence problems.
AP008209 Genomic DNA. Translation: BAF11490.1.
CM000140 Genomic DNA. Translation: EAZ26297.1.
AK065537 mRNA. Translation: BAG89556.1.
AK067765 mRNA. Translation: BAG90585.1.
RefSeqiNP_001049576.1. NM_001056111.1.
UniGeneiOs.8513.

3D structure databases

ProteinModelPortaliQ10P01.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os03g14800.1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS03T0252800-01; OS03T0252800-01; OS03G0252800.
GeneIDi4332274.
KEGGiosa:4332274.

Organism-specific databases

GrameneiQ10P01.

Phylogenomic databases

eggNOGiCOG0156.
HOGENOMiHOG000120827.
InParanoidiQ10P01.
KOiK00654.

Enzyme and pathway databases

UniPathwayiUPA00222.
ReactomeiREACT_273869. Sphingolipid de novo biosynthesis.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
InterProiIPR004839. Aminotransferase_I/II.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
[Graphical view]
PfamiPF00155. Aminotran_1_2. 1 hit.
[Graphical view]
SUPFAMiSSF53383. SSF53383. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species."
    The rice chromosome 3 sequencing consortium
    Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B., Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T., Fadrosh D., Bera J., Weaver B., Jin S.
    , Johri S., Reardon M., Webb K., Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T., Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R., Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J., Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S., Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M., Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M., Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L., O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R., Jin W., Lee H.R., Jiang J., Jackson S.
    Genome Res. 15:1284-1291(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  3. "The rice annotation project database (RAP-DB): 2008 update."
    The rice annotation project (RAP)
    Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  4. "The genomes of Oryza sativa: a history of duplications."
    Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.
    , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.
    PLoS Biol. 3:266-281(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  5. "Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
    The rice full-length cDNA consortium
    Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Nipponbare.

Entry informationi

Entry nameiLCB1A_ORYSJ
AccessioniPrimary (citable) accession number: Q10P01
Secondary accession number(s): Q10P00, Q10P02
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2012
Last sequence update: August 22, 2006
Last modified: June 24, 2015
This is version 69 of the entry and version 1 of the sequence. [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

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.