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Q8RYL1

- LCB2B_ORYSJ

UniProt

Q8RYL1 - LCB2B_ORYSJ

Protein

Long chain base biosynthesis protein 2b

Gene

Os01g0928600

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 82 (01 Oct 2014)
      Sequence version 1 (01 Jun 2002)
      Previous versions | rss
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    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

    Pyridoxal phosphate.By similarity

    Pathwayi

    GO - Molecular functioni

    1. pyridoxal phosphate binding Source: InterPro
    2. serine C-palmitoyltransferase activity Source: UniProtKB-EC

    GO - Biological processi

    1. biosynthetic process Source: InterPro
    2. sphingolipid metabolic process Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Acyltransferase, Transferase

    Keywords - Biological processi

    Lipid metabolism, Sphingolipid metabolism

    Keywords - Ligandi

    Pyridoxal phosphate

    Enzyme and pathway databases

    ReactomeiREACT_220105. Sphingolipid de novo biosynthesis.
    UniPathwayiUPA00222.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Long chain base biosynthesis protein 2b (EC:2.3.1.50)
    Gene namesi
    Ordered Locus Names:Os01g0928600, LOC_Os01g70360
    ORF Names:OsJ_04633, OSJNBa0052O12.11
    OrganismiOryza sativa subsp. japonica (Rice)
    Taxonomic identifieri39947 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
    ProteomesiUP000000763: Chromosome 1

    Organism-specific databases

    GrameneiQ8RYL1.

    Subcellular locationi

    GO - Cellular componenti

    1. endoplasmic reticulum membrane Source: UniProtKB-SubCell
    2. integral component of membrane Source: UniProtKB-KW

    Keywords - Cellular componenti

    Endoplasmic reticulum, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 499499Long chain base biosynthesis protein 2bPRO_0000419151Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei322 – 3221N6-(pyridoxal phosphate)lysineBy similarity

    Proteomic databases

    PRIDEiQ8RYL1.

    Interactioni

    Subunit structurei

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

    Structurei

    3D structure databases

    ProteinModelPortaliQ8RYL1.
    ModBaseiSearch...
    MobiDBiSearch...

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei5 – 2521HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Sequence similaritiesi

    Keywords - Domaini

    Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiCOG0156.
    OMAiYIASSHE.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    3.90.1150.10. 1 hit.
    InterProiIPR001917. Aminotrans_II_pyridoxalP_BS.
    IPR004839. Aminotransferase_I/II.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    [Graphical view]
    PfamiPF00155. Aminotran_1_2. 1 hit.
    [Graphical view]
    SUPFAMiSSF53383. SSF53383. 1 hit.
    PROSITEiPS00599. AA_TRANSFER_CLASS_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q8RYL1-1 [UniParc]FASTAAdd to Basket

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    MVIKVPYVTA ATTLFSFGLI FGFGHLRDSF RALLRLLFSS AAAADSPAGC    50
    NSKGYAPICV GKEDFYIRRF FRRVQDCFGR PIASKPDAWF DVVERYSTDS 100
    NKTLHCTTKT SKCLNLASFN YLGFAAADEY CTPRVIESLK KYSASTCSSR 150
    VDGGNTQLHI ELEELVARFV RKPSAILLAM GYATNSAIIP ALIGKGGLII 200
    SDSLNHNSIV SGARASGATI RVFEHNNPAH LEKLLREQIS GGQPRTHRAW 250
    KKILVIVEGI YSMEGELCKL PEIISVCKKY KVYTYMDEAH SIGAVGKTGR 300
    GVCELLGVDP ADVDIMMGTL SKSFGSSGGY IAASKEIIQH LKLTCPSHIY 350
    GTSMSPPAVQ QVISAMKVIL GEDGTDRGAK KIAQIRDNSN FFRSELQKMG 400
    FEVLGDNDSP VMPFMVYNPA KMPAFSRECL KQNVAVVPVG FPATPLLLGR 450
    IRICISASHS REDLIKGLEV ISNVGDLVGI KYLPVEQEET TSVEKPKKL 499
    Length:499
    Mass (Da):54,484
    Last modified:June 1, 2002 - v1
    Checksum:iDE09CFF7BA824CCF
    GO

    Sequence cautioni

    The sequence BAF07191.2 differs from that shown. Reason: Erroneous gene model prediction.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP004330 Genomic DNA. Translation: BAB90751.1.
    AP008207 Genomic DNA. Translation: BAF07191.2. Sequence problems.
    CM000138 Genomic DNA. Translation: EAZ14709.1.
    AK241034 mRNA. Translation: BAH00934.1.
    RefSeqiNP_001045277.2. NM_001051812.2.
    UniGeneiOs.42735.

    Genome annotation databases

    EnsemblPlantsiOS01T0928600-01; OS01T0928600-01; OS01G0928600.
    GeneIDi4326964.
    KEGGiosa:4326964.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP004330 Genomic DNA. Translation: BAB90751.1 .
    AP008207 Genomic DNA. Translation: BAF07191.2 . Sequence problems.
    CM000138 Genomic DNA. Translation: EAZ14709.1 .
    AK241034 mRNA. Translation: BAH00934.1 .
    RefSeqi NP_001045277.2. NM_001051812.2.
    UniGenei Os.42735.

    3D structure databases

    ProteinModelPortali Q8RYL1.
    ModBasei Search...
    MobiDBi Search...

    Proteomic databases

    PRIDEi Q8RYL1.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi OS01T0928600-01 ; OS01T0928600-01 ; OS01G0928600 .
    GeneIDi 4326964.
    KEGGi osa:4326964.

    Organism-specific databases

    Gramenei Q8RYL1.

    Phylogenomic databases

    eggNOGi COG0156.
    OMAi YIASSHE.

    Enzyme and pathway databases

    UniPathwayi UPA00222 .
    Reactomei REACT_220105. Sphingolipid de novo biosynthesis.

    Family and domain databases

    Gene3Di 3.40.640.10. 1 hit.
    3.90.1150.10. 1 hit.
    InterProi IPR001917. Aminotrans_II_pyridoxalP_BS.
    IPR004839. Aminotransferase_I/II.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    [Graphical view ]
    Pfami PF00155. Aminotran_1_2. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53383. SSF53383. 1 hit.
    PROSITEi PS00599. AA_TRANSFER_CLASS_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The genome sequence and structure of rice chromosome 1."
      Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y., Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H., Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.
      , Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.
      Nature 420:312-316(2002) [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. "Oryza sativa full length cDNA."
      The rice full-length cDNA consortium
      Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: cv. Nipponbare.

    Entry informationi

    Entry nameiLCB2B_ORYSJ
    AccessioniPrimary (citable) accession number: Q8RYL1
    Secondary accession number(s): Q0JGD7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 3, 2012
    Last sequence update: June 1, 2002
    Last modified: October 1, 2014
    This is version 82 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