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Q8RYL1

- LCB2B_ORYSJ

UniProt

Q8RYL1 - LCB2B_ORYSJ

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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

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

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
Complete GO annotation...

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

Topology

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

GO - Cellular componenti

  1. endoplasmic reticulum Source: UniProtKB-KW
  2. integral component of membrane Source: UniProtKB-KW
Complete GO annotation...

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...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiCOG0156.
InParanoidiQ8RYL1.
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

« Hide

        10         20         30         40         50
MVIKVPYVTA ATTLFSFGLI FGFGHLRDSF RALLRLLFSS AAAADSPAGC
60 70 80 90 100
NSKGYAPICV GKEDFYIRRF FRRVQDCFGR PIASKPDAWF DVVERYSTDS
110 120 130 140 150
NKTLHCTTKT SKCLNLASFN YLGFAAADEY CTPRVIESLK KYSASTCSSR
160 170 180 190 200
VDGGNTQLHI ELEELVARFV RKPSAILLAM GYATNSAIIP ALIGKGGLII
210 220 230 240 250
SDSLNHNSIV SGARASGATI RVFEHNNPAH LEKLLREQIS GGQPRTHRAW
260 270 280 290 300
KKILVIVEGI YSMEGELCKL PEIISVCKKY KVYTYMDEAH SIGAVGKTGR
310 320 330 340 350
GVCELLGVDP ADVDIMMGTL SKSFGSSGGY IAASKEIIQH LKLTCPSHIY
360 370 380 390 400
GTSMSPPAVQ QVISAMKVIL GEDGTDRGAK KIAQIRDNSN FFRSELQKMG
410 420 430 440 450
FEVLGDNDSP VMPFMVYNPA KMPAFSRECL KQNVAVVPVG FPATPLLLGR
460 470 480 490
IRICISASHS REDLIKGLEV ISNVGDLVGI KYLPVEQEET TSVEKPKKL
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. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.
InParanoidi Q8RYL1.
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

« Hide 'large scale' publications
  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: November 26, 2014
This is version 84 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