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D2WL32 (GLGB3_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 43. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic

Short name=AtSBE III
EC=2.4.1.18
Alternative name(s):
Branching enzyme 1
Short name=AtBE1
Protein EMBRYO DEFECTIVE 2729
Starch-branching enzyme 3
Gene names
Name:SBE3
Synonyms:BE1, EMB2729
Ordered Locus Names:At3g20440
ORF Names:MQC12.20
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length899 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.1 Ref.5

Catalytic activity

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

Pathway

Glycan biosynthesis; starch biosynthesis.

Subunit structure

Monomer By similarity.

Subcellular location

Plastidchloroplast stroma. Plastidamyloplast By similarity Ref.1 Ref.7 Ref.8.

Tissue specificity

Mostly expressed in flowers and inflorescence, and, to a lower extent, in seedlings, roots, stems, leaves, siliques and seeds. Ref.1 Ref.6

Disruption phenotype

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. Ref.1 Ref.5

Sequence similarities

Belongs to the glycosyl hydrolase 13 family. GlgB subfamily.

Sequence caution

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

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: D2WL32-1)

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.
Isoform 2 (identifier: D2WL32-2)

The sequence of this isoform differs from the canonical sequence as follows:
     424-453: Missing.
Note: No experimental confirmation available.
Isoform 3 (identifier: D2WL32-3)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Transit peptide1 – 4949Chloroplast Potential
Chain50 – 8998501,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic
PRO_0000415337

Sites

Active site6121Proton donor By similarity

Natural variations

Alternative sequence3651P → PGMTAF in isoform 3.
VSP_042216
Alternative sequence424 – 45330Missing in isoform 2.
VSP_042217
Alternative sequence7801K → KVS in isoform 3.
VSP_042218
Alternative sequence881 – 8899Missing in isoform 3.
VSP_042219

Experimental info

Mutagenesis3661E → 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. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified March 2, 2010. Version 1.
Checksum: 6C047303FD5D924E

FASTA899103,525
        10         20         30         40         50         60 
MVSLSNQTRF SFHPNNLVVS EKRRLGISGV NFPRKIKLKI TCFAAERPRQ EKQKKKSQSQ 

        70         80         90        100        110        120 
STSDAEAGVD PVGFLTRLGI ADRIFAQFLR ERHKALKDLK DEIFKRHFDF RDFASGFELL 

       130        140        150        160        170        180 
GMHRHMEHRV DFMDWGPGSR YGAIIGDFNG WSPTENAARE GLFGHDDYGY WFIILEDKLR 

       190        200        210        220        230        240 
EGEEPDELYF QQYNYVDDYD KGDSGVSAEE IFQKANDEYW EPGEDRFIKN RFEVPAKLYE 

       250        260        270        280        290        300 
QMFGPNSPQT LEELGDIPDA ETRYKQWKEE HKDDPPSNLP PCDIIDKGQG KPYDIFNVVT 

       310        320        330        340        350        360 
SPEWTKKFYE KEPPIPYWLE TRKGRKAWLQ KYIPAVPHGS KYRLYFNTPD GPLERVPAWA 

       370        380        390        400        410        420 
TYVQPEDEGK QAYAIHWEPS PEAAYKWKYS KPKVPESLRI YECHVGISGS EPKVSTFEEF 

       430        440        450        460        470        480 
TKKVLPHVKR AGYNAIQLIG VPEHKDYFTV GYRVTNFFAA SSRYGTPDDF KRLVDEAHGL 

       490        500        510        520        530        540 
GLLVFLDIVH SYAAADQMVG LSLFDGSNDC YFHYGKRGHH KHWGTRMFKY GDLDVLHFLI 

       550        560        570        580        590        600 
SNLNWWITEY QVDGYQFHSL ASMIYTHNGF ASFNNDLDDY CNQYVDRDAL MYLILANEIL 

       610        620        630        640        650        660 
HVQHPNIITI AEDATYYPGL CEPVSQGGLG FDYYVNLSAS EMWVSLLDNV PDNEWSMSKI 

       670        680        690        700        710        720 
VSTLVANKEY ADKMLSYAEN HNQSISGGRS FAEILFGGVD NGSPGGKELL DRGISLHKMI 

       730        740        750        760        770        780 
RLITFTSGGR AYLNFMGNEF GHPERVEFPT QSNNFSFSLA NRRWDLLESG VHHHLFSFDK 

       790        800        810        820        830        840 
ELMDLDKSKG ILSRGLPSIH HVNDANMVIS FSRGPFLFIF NFHPSNSYEK YDVGVEEAGE 

       850        860        870        880        890 
YTMILNSDEV KYGGQGIVTE DHYLQRSISK RIDGQRNCLE VFLPSRTAQV YKLTRILRI 

« Hide

Isoform 2 [UniParc].

Checksum: AC9CB03532EBDD4C
Show »

FASTA869100,101
Isoform 3 [UniParc].

Checksum: 0BD1979DB44C356F
Show »

FASTA897103,219

References

« Hide 'large scale' references
[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]"Functional annotation of a full-length Arabidopsis cDNA collection."
Seki M., Narusaka M., Kamiya A., Ishida J., Satou M., Sakurai T., Nakajima M., Enju A., Akiyama K., Oono Y., Muramatsu M., Hayashizaki Y., Kawai J., Carninci P., Itoh M., Ishii Y., Arakawa T., Shibata K., Shinagawa A., Shinozaki K.
Science 296:141-145(2002) [PubMed] [Europe PMC] [Abstract]
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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
RefSeqNP_001154629.1. NM_001161157.1. [D2WL32-1]
NP_001189940.1. NM_001203011.1. [D2WL32-3]
NP_188679.2. NM_112935.2. [D2WL32-2]
UniGeneAt.38239.

3D structure databases

ProteinModelPortalD2WL32.
SMRD2WL32. Positions 336-892.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING3702.AT3G20440.2-P.

Protein family/group databases

CAZyCBM48. Carbohydrate-Binding Module Family 48.
GH13. Glycoside Hydrolase Family 13.

Proteomic databases

PRIDED2WL32.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT3G20440.2; AT3G20440.2; AT3G20440. [D2WL32-1]
GeneID821589.
KEGGath:AT3G20440.

Organism-specific databases

TAIRAT3G20440.

Phylogenomic databases

eggNOGCOG0296.
HOGENOMHOG000175159.
InParanoidQ8GWK4.
OMARSISKRI.

Enzyme and pathway databases

BioCycARA:AT3G20440-MONOMER.
ARA:GQT-615-MONOMER.
UniPathwayUPA00152.

Family and domain databases

Gene3D2.60.40.10. 1 hit.
2.60.40.1180. 1 hit.
3.20.20.80. 1 hit.
InterProIPR006048. 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]
PANTHERPTHR10357. PTHR10357. 1 hit.
PfamPF00128. Alpha-amylase. 1 hit.
PF02806. Alpha-amylase_C. 1 hit.
[Graphical view]
SUPFAMSSF51445. SSF51445. 1 hit.
ProtoNetSearch...

Entry information

Entry nameGLGB3_ARATH
AccessionPrimary (citable) accession number: D2WL32
Secondary accession number(s): F4JEP1, Q8GWK4, Q9LTP8
Entry history
Integrated into UniProtKB/Swiss-Prot: January 25, 2012
Last sequence update: March 2, 2010
Last modified: June 11, 2014
This is version 43 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways

Glycosyl hydrolases

Classification of glycosyl hydrolase families and list of entries

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names