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D2WL32

- GLGB3_ARATH

UniProt

D2WL32 - GLGB3_ARATH

Protein

1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic

Gene

SBE3

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 44 (01 Oct 2014)
      Sequence version 1 (02 Mar 2010)
      Previous versions | rss
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    Functioni

    Catalyzes the formation of the alpha-1,6-glucosidic linkages in starch by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position. Essential during embryogenesis.2 Publications

    Catalytic activityi

    Transfers a segment of a (1->4)-alpha-D-glucan chain to a primary hydroxy group in a similar glucan chain.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei612 – 6121Proton donorBy similarity

    GO - Molecular functioni

    1. 1,4-alpha-glucan branching enzyme activity Source: UniProtKB-EC
    2. cation binding Source: InterPro

    GO - Biological processi

    1. carbohydrate metabolic process Source: TAIR
    2. post-embryonic development Source: TAIR
    3. starch biosynthetic process Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Glycosyltransferase, Transferase

    Enzyme and pathway databases

    BioCyciARA:AT3G20440-MONOMER.
    ARA:GQT-615-MONOMER.
    UniPathwayiUPA00152.

    Protein family/group databases

    CAZyiCBM48. Carbohydrate-Binding Module Family 48.
    GH13. Glycoside Hydrolase Family 13.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic (EC:2.4.1.18)
    Short name:
    AtSBE III
    Alternative name(s):
    Branching enzyme 1
    Short name:
    AtBE1
    Protein EMBRYO DEFECTIVE 2729
    Starch-branching enzyme 3
    Gene namesi
    Name:SBE3
    Synonyms:BE1, EMB2729
    Ordered Locus Names:At3g20440
    ORF Names:MQC12.20
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 3

    Organism-specific databases

    TAIRiAT3G20440.

    Subcellular locationi

    Plastidchloroplast stroma 3 Publications. Plastidamyloplast By similarity

    GO - Cellular componenti

    1. amyloplast Source: UniProtKB-SubCell
    2. chloroplast Source: TAIR
    3. chloroplast stroma Source: UniProtKB-SubCell
    4. plastid Source: TAIR

    Keywords - Cellular componenti

    Amyloplast, Chloroplast, Plastid

    Pathology & Biotechi

    Disruption phenotypei

    Embryolethal. Embryo developmental arrests at the heart stage associated with reduced cell divisions and abnormal cell differentiation, thereby leading to defects in setting up the shoot apical meristem, embryonic vascular tissues and cotyledons. Modified starch composition. This phenotype is enhanced when associated with SBE2.1 and SBE2.2 disruptions.2 Publications

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi366 – 3661E → K in be1-3; reduced level of BE1 transcription and various developmental defects during post-germination growth such as shorter primary roots, delayed greening of cotyledons and leaf development, yellowish and small leaves leading to smaller plants with altered petals and sepals in flowers. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 4949ChloroplastSequence AnalysisAdd
    BLAST
    Chaini50 – 8998501,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplasticPRO_0000415337Add
    BLAST

    Proteomic databases

    PRIDEiD2WL32.

    Expressioni

    Tissue specificityi

    Mostly expressed in flowers and inflorescence, and, to a lower extent, in seedlings, roots, stems, leaves, siliques and seeds.2 Publications

    Interactioni

    Subunit structurei

    Monomer.By similarity

    Protein-protein interaction databases

    STRINGi3702.AT3G20440.2-P.

    Structurei

    3D structure databases

    ProteinModelPortaliD2WL32.
    SMRiD2WL32. Positions 336-892.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG0296.
    HOGENOMiHOG000175159.
    InParanoidiQ8GWK4.
    OMAiRSISKRI.

    Family and domain databases

    Gene3Di2.60.40.10. 1 hit.
    2.60.40.1180. 1 hit.
    3.20.20.80. 1 hit.
    InterProiIPR006048. A-amylase_b_C.
    IPR015902. Glyco_hydro_13.
    IPR013780. Glyco_hydro_13_b.
    IPR006047. Glyco_hydro_13_cat_dom.
    IPR013781. Glyco_hydro_catalytic_dom.
    IPR017853. Glycoside_hydrolase_SF.
    IPR013783. Ig-like_fold.
    [Graphical view]
    PANTHERiPTHR10357. PTHR10357. 1 hit.
    PfamiPF00128. Alpha-amylase. 1 hit.
    PF02806. Alpha-amylase_C. 1 hit.
    [Graphical view]
    SUPFAMiSSF51445. SSF51445. 1 hit.

    Sequences (3)i

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: D2WL32-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MVSLSNQTRF SFHPNNLVVS EKRRLGISGV NFPRKIKLKI TCFAAERPRQ    50
    EKQKKKSQSQ STSDAEAGVD PVGFLTRLGI ADRIFAQFLR ERHKALKDLK 100
    DEIFKRHFDF RDFASGFELL GMHRHMEHRV DFMDWGPGSR YGAIIGDFNG 150
    WSPTENAARE GLFGHDDYGY WFIILEDKLR EGEEPDELYF QQYNYVDDYD 200
    KGDSGVSAEE IFQKANDEYW EPGEDRFIKN RFEVPAKLYE QMFGPNSPQT 250
    LEELGDIPDA ETRYKQWKEE HKDDPPSNLP PCDIIDKGQG KPYDIFNVVT 300
    SPEWTKKFYE KEPPIPYWLE TRKGRKAWLQ KYIPAVPHGS KYRLYFNTPD 350
    GPLERVPAWA TYVQPEDEGK QAYAIHWEPS PEAAYKWKYS KPKVPESLRI 400
    YECHVGISGS EPKVSTFEEF TKKVLPHVKR AGYNAIQLIG VPEHKDYFTV 450
    GYRVTNFFAA SSRYGTPDDF KRLVDEAHGL GLLVFLDIVH SYAAADQMVG 500
    LSLFDGSNDC YFHYGKRGHH KHWGTRMFKY GDLDVLHFLI SNLNWWITEY 550
    QVDGYQFHSL ASMIYTHNGF ASFNNDLDDY CNQYVDRDAL MYLILANEIL 600
    HVQHPNIITI AEDATYYPGL CEPVSQGGLG FDYYVNLSAS EMWVSLLDNV 650
    PDNEWSMSKI VSTLVANKEY ADKMLSYAEN HNQSISGGRS FAEILFGGVD 700
    NGSPGGKELL DRGISLHKMI RLITFTSGGR AYLNFMGNEF GHPERVEFPT 750
    QSNNFSFSLA NRRWDLLESG VHHHLFSFDK ELMDLDKSKG ILSRGLPSIH 800
    HVNDANMVIS FSRGPFLFIF NFHPSNSYEK YDVGVEEAGE YTMILNSDEV 850
    KYGGQGIVTE DHYLQRSISK RIDGQRNCLE VFLPSRTAQV YKLTRILRI 899
    Length:899
    Mass (Da):103,525
    Last modified:March 2, 2010 - v1
    Checksum:i6C047303FD5D924E
    GO
    Isoform 2 (identifier: D2WL32-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         424-453: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:869
    Mass (Da):100,101
    Checksum:iAC9CB03532EBDD4C
    GO
    Isoform 3 (identifier: D2WL32-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         365-365: P → PGMTAF
         780-780: K → KVS
         881-889: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:897
    Mass (Da):103,219
    Checksum:i0BD1979DB44C356F
    GO

    Sequence cautioni

    The sequence BAB02827.1 differs from that shown. Reason: Erroneous gene model prediction.

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei365 – 3651P → PGMTAF in isoform 3. CuratedVSP_042216
    Alternative sequencei424 – 45330Missing in isoform 2. 1 PublicationVSP_042217Add
    BLAST
    Alternative sequencei780 – 7801K → KVS in isoform 3. CuratedVSP_042218
    Alternative sequencei881 – 8899Missing in isoform 3. CuratedVSP_042219

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    GQ374452 mRNA. Translation: ADB29066.1.
    AB024036 Genomic DNA. Translation: BAB02827.1. Sequence problems.
    CP002686 Genomic DNA. Translation: AEE76378.1.
    CP002686 Genomic DNA. Translation: AEE76379.1.
    CP002686 Genomic DNA. Translation: AEE76380.1.
    AK118785 mRNA. Translation: BAC43378.1.
    RefSeqiNP_001154629.1. NM_001161157.1. [D2WL32-1]
    NP_001189940.1. NM_001203011.1. [D2WL32-3]
    NP_188679.2. NM_112935.2. [D2WL32-2]
    UniGeneiAt.38239.

    Genome annotation databases

    EnsemblPlantsiAT3G20440.2; AT3G20440.2; AT3G20440. [D2WL32-1]
    GeneIDi821589.
    KEGGiath:AT3G20440.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    GQ374452 mRNA. Translation: ADB29066.1 .
    AB024036 Genomic DNA. Translation: BAB02827.1 . Sequence problems.
    CP002686 Genomic DNA. Translation: AEE76378.1 .
    CP002686 Genomic DNA. Translation: AEE76379.1 .
    CP002686 Genomic DNA. Translation: AEE76380.1 .
    AK118785 mRNA. Translation: BAC43378.1 .
    RefSeqi NP_001154629.1. NM_001161157.1. [D2WL32-1 ]
    NP_001189940.1. NM_001203011.1. [D2WL32-3 ]
    NP_188679.2. NM_112935.2. [D2WL32-2 ]
    UniGenei At.38239.

    3D structure databases

    ProteinModelPortali D2WL32.
    SMRi D2WL32. Positions 336-892.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 3702.AT3G20440.2-P.

    Protein family/group databases

    CAZyi CBM48. Carbohydrate-Binding Module Family 48.
    GH13. Glycoside Hydrolase Family 13.

    Proteomic databases

    PRIDEi D2WL32.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT3G20440.2 ; AT3G20440.2 ; AT3G20440 . [D2WL32-1 ]
    GeneIDi 821589.
    KEGGi ath:AT3G20440.

    Organism-specific databases

    TAIRi AT3G20440.

    Phylogenomic databases

    eggNOGi COG0296.
    HOGENOMi HOG000175159.
    InParanoidi Q8GWK4.
    OMAi RSISKRI.

    Enzyme and pathway databases

    UniPathwayi UPA00152 .
    BioCyci ARA:AT3G20440-MONOMER.
    ARA:GQT-615-MONOMER.

    Family and domain databases

    Gene3Di 2.60.40.10. 1 hit.
    2.60.40.1180. 1 hit.
    3.20.20.80. 1 hit.
    InterProi IPR006048. A-amylase_b_C.
    IPR015902. Glyco_hydro_13.
    IPR013780. Glyco_hydro_13_b.
    IPR006047. Glyco_hydro_13_cat_dom.
    IPR013781. Glyco_hydro_catalytic_dom.
    IPR017853. Glycoside_hydrolase_SF.
    IPR013783. Ig-like_fold.
    [Graphical view ]
    PANTHERi PTHR10357. PTHR10357. 1 hit.
    Pfami PF00128. Alpha-amylase. 1 hit.
    PF02806. Alpha-amylase_C. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51445. SSF51445. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "The Arabidopsis BE1 gene, encoding a putative glycoside hydrolase localized in plastids, plays crucial roles during embryogenesis and carbohydrate metabolism."
      Wang X., Xue L., Sun J., Zuo J.
      J. Integr. Plant Biol. 52:273-288(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, MUTAGENESIS OF GLU-366, DISRUPTION PHENOTYPE.
      Strain: cv. Columbia.
    2. "Structural analysis of Arabidopsis thaliana chromosome 3. I. Sequence features of the regions of 4,504,864 bp covered by sixty P1 and TAC clones."
      Sato S., Nakamura Y., Kaneko T., Katoh T., Asamizu E., Tabata S.
      DNA Res. 7:131-135(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Columbia.
    3. The Arabidopsis Information Resource (TAIR)
      Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
      Cited for: GENOME REANNOTATION.
      Strain: cv. Columbia.
    4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
      Strain: cv. Columbia.
    5. "Mutants of Arabidopsis lacking starch branching enzyme II substitute plastidial starch synthesis by cytoplasmic maltose accumulation."
      Dumez S., Wattebled F., Dauvillee D., Delvalle D., Planchot V., Ball S.G., D'Hulst C.
      Plant Cell 18:2694-2709(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DISRUPTION PHENOTYPE.
      Strain: cv. Columbia and cv. Wassilewskija.
    6. "Three orthologs in rice, Arabidopsis, and Populus encoding starch branching enzymes (SBEs) are different from other SBE gene families in plants."
      Han Y., Sun F.-J., Rosales-Mendoza S., Korban S.S.
      Gene 401:123-130(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: TISSUE SPECIFICITY, GENE FAMILY, NOMENCLATURE.
      Strain: cv. Columbia.
    7. "Sorting signals, N-terminal modifications and abundance of the chloroplast proteome."
      Zybailov B., Rutschow H., Friso G., Rudella A., Emanuelsson O., Sun Q., van Wijk K.J.
      PLoS ONE 3:E1994-E1994(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
      Strain: cv. Columbia.
    8. "Megadalton complexes in the chloroplast stroma of Arabidopsis thaliana characterized by size exclusion chromatography, mass spectrometry, and hierarchical clustering."
      Olinares P.D., Ponnala L., van Wijk K.J.
      Mol. Cell. Proteomics 9:1594-1615(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
      Strain: cv. Columbia.

    Entry informationi

    Entry nameiGLGB3_ARATH
    AccessioniPrimary (citable) accession number: D2WL32
    Secondary accession number(s): F4JEP1, Q8GWK4, Q9LTP8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 25, 2012
    Last sequence update: March 2, 2010
    Last modified: October 1, 2014
    This is version 44 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. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. Glycosyl hydrolases
      Classification of glycosyl hydrolase families and list of entries
    3. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    4. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3