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Protein

B3 domain-containing transcription factor ABI3

Gene

ABI3

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Participates in abscisic acid-regulated gene expression during seed development. Regulates the transcription of SGR1 and SGR2 that are involved in leaf and embryo degreening.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi572 – 674103TF-B3PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • DNA binding Source: TAIR
  • transcription factor activity, RNA polymerase II transcription factor binding Source: TAIR
  • transcription factor activity, sequence-specific DNA binding Source: TAIR

GO - Biological processi

  • abscisic acid-activated signaling pathway Source: UniProtKB-KW
  • embryo development ending in seed dormancy Source: TAIR
  • mitochondria-nucleus signaling pathway Source: TAIR
  • plastid organization Source: TAIR
  • positive regulation of transcription, DNA-templated Source: TAIR
  • regulation of transcription from RNA polymerase II promoter Source: GOC
  • response to abscisic acid Source: TAIR
  • response to auxin Source: TAIR
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Developmental protein

Keywords - Biological processi

Abscisic acid signaling pathway, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
B3 domain-containing transcription factor ABI3
Alternative name(s):
Protein ABSCISIC ACID-INSENSITIVE 3
Gene namesi
Name:ABI3
Ordered Locus Names:At3g24650
ORF Names:MSD24.2
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G24650.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: UniProtKB
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 720720B3 domain-containing transcription factor ABI3PRO_0000111504Add
BLAST

Post-translational modificationi

Ubiquitinated by AIP2. Ubiquitination probably leads to its subsequent degradation, thus negatively regulating ABA signaling.1 Publication

Keywords - PTMi

Ubl conjugation

Proteomic databases

PaxDbiQ01593.
PRIDEiQ01593.

Expressioni

Tissue specificityi

Isoform 2 accumulates only at the end of seed maturation.1 Publication

Developmental stagei

Expressed in the embryos, endosperm, and outer teguments of the seed throughout seed development.1 Publication

Inductioni

Repressed by silencing mediated by polycomb group (PcG) protein complex containing EMF1 and EMF2.1 Publication

Gene expression databases

GenevisibleiQ01593. AT.

Interactioni

Subunit structurei

Interacts (via C-terminus) with SPK1, SCAR3, ABI5, APRR1, AIP2, AIP3 and AIP4. Binds to BZIP10 and BZIP25 and forms complexes made of ABI3, BZIP53 and BZIP25 or BZIP10.6 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
AIP2Q8RXD33EBI-1578892,EBI-2312425
AIP3Q9M4B52EBI-1578892,EBI-2130809

Protein-protein interaction databases

BioGridi7392. 18 interactions.
IntActiQ01593. 8 interactions.
STRINGi3702.AT3G24650.1.

Structurei

3D structure databases

ProteinModelPortaliQ01593.
SMRiQ01593. Positions 571-655.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Contains 1 TF-B3 DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG410IJ7Z. Eukaryota.
ENOG4111P6C. LUCA.
InParanoidiQ01593.
OMAiWAILRSD.
PhylomeDBiQ01593.

Family and domain databases

Gene3Di2.40.330.10. 1 hit.
InterProiIPR003340. B3_DNA-bd.
IPR015300. DNA-bd_pseudobarrel.
[Graphical view]
PfamiPF02362. B3. 1 hit.
[Graphical view]
SMARTiSM01019. B3. 1 hit.
[Graphical view]
SUPFAMiSSF101936. SSF101936. 1 hit.
PROSITEiPS50863. B3. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. Splicing is regulated by SUA.1 Publication

Isoform 1 (identifier: Q01593-1) [UniParc]FASTAAdd to basket

Also known as: ABI3-alpha

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

        10         20         30         40         50
MKSLHVAANA GDLAEDCGIL GGDADDTVLM DGIDEVGREI WLDDHGGDNN
60 70 80 90 100
HVHGHQDDDL IVHHDPSIFY GDLPTLPDFP CMSSSSSSST SPAPVNAIVS
110 120 130 140 150
SASSSSAASS STSSAASWAI LRSDGEDPTP NQNQYASGNC DDSSGALQST
160 170 180 190 200
ASMEIPLDSS QGFGCGEGGG DCIDMMETFG YMDLLDSNEF FDTSAIFSQD
210 220 230 240 250
DDTQNPNLMD QTLERQEDQV VVPMMENNSG GDMQMMNSSL EQDDDLAAVF
260 270 280 290 300
LEWLKNNKET VSAEDLRKVK IKKATIESAA RRLGGGKEAM KQLLKLILEW
310 320 330 340 350
VQTNHLQRRR TTTTTTNLSY QQSFQQDPFQ NPNPNNNNLI PPSDQTCFSP
360 370 380 390 400
STWVPPPPQQ QAFVSDPGFG YMPAPNYPPQ PEFLPLLESP PSWPPPPQSG
410 420 430 440 450
PMPHQQFPMP PTSQYNQFGD PTGFNGYNMN PYQYPYVPAG QMRDQRLLRL
460 470 480 490 500
CSSATKEARK KRMARQRRFL SHHHRHNNNN NNNNNNQQNQ TQIGETCAAV
510 520 530 540 550
APQLNPVATT ATGGTWMYWP NVPAVPPQLP PVMETQLPTM DRAGSASAMP
560 570 580 590 600
RQQVVPDRRQ GWKPEKNLRF LLQKVLKQSD VGNLGRIVLP KKEAETHLPE
610 620 630 640 650
LEARDGISLA MEDIGTSRVW NMRYRFWPNN KSRMYLLENT GDFVKTNGLQ
660 670 680 690 700
EGDFIVIYSD VKCGKYLIRG VKVRQPSGQK PEAPPSSAAT KRQNKSQRNI
710 720
NNNSPSANVV VASPTSQTVK
Length:720
Mass (Da):79,500
Last modified:October 1, 1994 - v1
Checksum:iD6A0F740D733060F
GO
Isoform 2 (identifier: Q01593-2) [UniParc]FASTAAdd to basket

Also known as: ABI3-beta

The sequence of this isoform differs from the canonical sequence as follows:
     415-429: YNQFGDPTGFNGYNM → TNERSEITPFVFLSN
     430-720: Missing.

Note: Due to a cryptic intron removal.1 Publication
Show »
Length:429
Mass (Da):46,669
Checksum:iFE9643CD51B878F4
GO

Sequence cautioni

The sequence BAB01214.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti100 – 1001S → P in BAD93896 (Ref. 4) Curated
Sequence conflicti100 – 1001S → P in BAD94272 (Ref. 4) Curated
Sequence conflicti344 – 3441D → V in BAD94272 (Ref. 4) Curated
Sequence conflicti486 – 4861Missing in CAA05484 (PubMed:1359917).Curated
Sequence conflicti556 – 5561P → L in BAE96106 (PubMed:16816409).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti225 – 2251M → L in strain: cv. An-1, cv. Br-0, cv. Ct-1, cv. Cvi-1, cv. Edi-0, cv. Ga-0, cv. Kas-1, cv. Kin-0, cv. Landsberg erecta, cv. Ll-0, cv. Lz-0, cv. Ms-0, cv. Mt-0, cv. Nok-3, cv. Oy-0, cv. Se-0, cv. Sorbo, cv. Tsu-1, cv. Van-0, cv. Wa-1 and cv. Wassilewskija. 1 Publication
Natural varianti231 – 2311G → E in strain: cv. Kas-1 and cv. Sorbo. 1 Publication
Natural varianti248 – 2481A → T in strain: cv. Cvi-1. 1 Publication

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei415 – 42915YNQFG…NGYNM → TNERSEITPFVFLSN in isoform 2. 1 PublicationVSP_058192Add
BLAST
Alternative sequencei430 – 720291Missing in isoform 2. 1 PublicationVSP_058193Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X68141 mRNA. Translation: CAA48241.1.
AJ002473 Genomic DNA. Translation: CAA05484.1.
AP000740 Genomic DNA. Translation: BAB01214.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE76933.1.
AK220739 mRNA. Translation: BAD93896.1.
AK220879 mRNA. Translation: BAD94272.1.
AB253328 Genomic DNA. Translation: BAE96106.1.
EF597723 Genomic DNA. Translation: ABR21503.1.
EF597724 Genomic DNA. Translation: ABR21504.1.
EF597725 Genomic DNA. Translation: ABR21505.1.
EF597726 Genomic DNA. Translation: ABR21506.1.
EF597727 Genomic DNA. Translation: ABR21507.1.
EF597728 Genomic DNA. Translation: ABR21508.1.
EF597729 Genomic DNA. Translation: ABR21509.1.
EF597730 Genomic DNA. Translation: ABR21510.1.
EF597731 Genomic DNA. Translation: ABR21511.1.
EF597732 Genomic DNA. Translation: ABR21512.1.
EF597733 Genomic DNA. Translation: ABR21513.1.
EF597734 Genomic DNA. Translation: ABR21514.1.
EF597735 Genomic DNA. Translation: ABR21515.1.
EF597736 Genomic DNA. Translation: ABR21516.1.
EF597737 Genomic DNA. Translation: ABR21517.1.
EF597738 Genomic DNA. Translation: ABR21518.1.
EF597739 Genomic DNA. Translation: ABR21519.1.
EF597740 Genomic DNA. Translation: ABR21520.1.
EF597741 Genomic DNA. Translation: ABR21521.1.
EF597743 Genomic DNA. Translation: ABR21523.1.
EF597744 Genomic DNA. Translation: ABR21524.1.
PIRiJQ1676.
RefSeqiNP_189108.1. NM_113376.3. [Q01593-1]
UniGeneiAt.19959.

Genome annotation databases

EnsemblPlantsiAT3G24650.1; AT3G24650.1; AT3G24650. [Q01593-1]
GeneIDi822061.
KEGGiath:AT3G24650.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X68141 mRNA. Translation: CAA48241.1.
AJ002473 Genomic DNA. Translation: CAA05484.1.
AP000740 Genomic DNA. Translation: BAB01214.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE76933.1.
AK220739 mRNA. Translation: BAD93896.1.
AK220879 mRNA. Translation: BAD94272.1.
AB253328 Genomic DNA. Translation: BAE96106.1.
EF597723 Genomic DNA. Translation: ABR21503.1.
EF597724 Genomic DNA. Translation: ABR21504.1.
EF597725 Genomic DNA. Translation: ABR21505.1.
EF597726 Genomic DNA. Translation: ABR21506.1.
EF597727 Genomic DNA. Translation: ABR21507.1.
EF597728 Genomic DNA. Translation: ABR21508.1.
EF597729 Genomic DNA. Translation: ABR21509.1.
EF597730 Genomic DNA. Translation: ABR21510.1.
EF597731 Genomic DNA. Translation: ABR21511.1.
EF597732 Genomic DNA. Translation: ABR21512.1.
EF597733 Genomic DNA. Translation: ABR21513.1.
EF597734 Genomic DNA. Translation: ABR21514.1.
EF597735 Genomic DNA. Translation: ABR21515.1.
EF597736 Genomic DNA. Translation: ABR21516.1.
EF597737 Genomic DNA. Translation: ABR21517.1.
EF597738 Genomic DNA. Translation: ABR21518.1.
EF597739 Genomic DNA. Translation: ABR21519.1.
EF597740 Genomic DNA. Translation: ABR21520.1.
EF597741 Genomic DNA. Translation: ABR21521.1.
EF597743 Genomic DNA. Translation: ABR21523.1.
EF597744 Genomic DNA. Translation: ABR21524.1.
PIRiJQ1676.
RefSeqiNP_189108.1. NM_113376.3. [Q01593-1]
UniGeneiAt.19959.

3D structure databases

ProteinModelPortaliQ01593.
SMRiQ01593. Positions 571-655.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi7392. 18 interactions.
IntActiQ01593. 8 interactions.
STRINGi3702.AT3G24650.1.

Proteomic databases

PaxDbiQ01593.
PRIDEiQ01593.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G24650.1; AT3G24650.1; AT3G24650. [Q01593-1]
GeneIDi822061.
KEGGiath:AT3G24650.

Organism-specific databases

TAIRiAT3G24650.

Phylogenomic databases

eggNOGiENOG410IJ7Z. Eukaryota.
ENOG4111P6C. LUCA.
InParanoidiQ01593.
OMAiWAILRSD.
PhylomeDBiQ01593.

Miscellaneous databases

PROiQ01593.

Gene expression databases

GenevisibleiQ01593. AT.

Family and domain databases

Gene3Di2.40.330.10. 1 hit.
InterProiIPR003340. B3_DNA-bd.
IPR015300. DNA-bd_pseudobarrel.
[Graphical view]
PfamiPF02362. B3. 1 hit.
[Graphical view]
SMARTiSM01019. B3. 1 hit.
[Graphical view]
SUPFAMiSSF101936. SSF101936. 1 hit.
PROSITEiPS50863. B3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Isolation of the Arabidopsis ABI3 gene by positional cloning."
    Giraudat J., Hauge B.M., Valon C., Smalle J., Parcy F., Goodman H.M.
    Plant Cell 4:1251-1261(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA].
    Strain: cv. Columbia.
    Tissue: Fruit.
  2. "Structural analysis of Arabidopsis thaliana chromosome 3. II. Sequence features of the 4,251,695 bp regions covered by 90 P1, TAC and BAC clones."
    Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S.
    DNA Res. 7:217-221(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. "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
    Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.
    , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
    Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Isolation and characterization of high temperature-resistant germination mutants of Arabidopsis thaliana."
    Tamura N., Yoshida T., Tanaka A., Sasaki R., Bando A., Toh S., Lepiniec L., Kawakami N.
    Plant Cell Physiol. 47:1081-1094(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 2-719.
    Strain: cv. Wassilewskija.
  6. "The genetic architecture of shoot branching in Arabidopsis thaliana: a comparative assessment of candidate gene associations vs. quantitative trait locus mapping."
    Ehrenreich I.M., Stafford P.A., Purugganan M.D.
    Genetics 176:1223-1236(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 48-302, VARIANTS LEU-225; GLU-231 AND THR-248.
    Strain: cv. An-1, cv. Br-0, cv. Ct-1, cv. Cvi-1, cv. Edi-0, cv. Ga-0, cv. Kas-1, cv. Kin-0, cv. Landsberg erecta, cv. Ll-0, cv. Lz-0, cv. Ms-0, cv. Mt-0, cv. Nok-3, cv. Oy-0, cv. Se-0, cv. Sorbo, cv. Tsu-1, cv. Van-0, cv. Wa-1 and cv. Wassilewskija.
  7. "Interactions of the developmental regulator ABI3 with proteins identified from developing Arabidopsis seeds."
    Kurup S., Jones H.D., Holdsworth M.J.
    Plant J. 21:143-155(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH APRR1; AIP2; AIP3 AND AIP4.
  8. "Physical interactions between ABA response loci of Arabidopsis."
    Nakamura S., Lynch T.J., Finkelstein R.R.
    Plant J. 26:627-635(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ABI5.
  9. "Synergistic activation of seed storage protein gene expression in Arabidopsis by ABI3 and two bZIPs related to OPAQUE2."
    Lara P., Onate-Sanchez L., Abraham Z., Ferrandiz C., Diaz I., Carbonero P., Vicente-Carbajosa J.
    J. Biol. Chem. 278:21003-21011(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH BZIP10 AND BZIP25, DEVELOPMENTAL STAGE.
    Strain: cv. Columbia.
  10. "The AIP2 E3 ligase acts as a novel negative regulator of ABA signaling by promoting ABI3 degradation."
    Zhang X., Garreton V., Chua N.H.
    Genes Dev. 19:1532-1543(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH AIP2, SUBCELLULAR LOCATION, UBIQUITINATION.
  11. "The role of Arabidopsis SCAR genes in ARP2-ARP3-dependent cell morphogenesis."
    Uhrig J.F., Mutondo M., Zimmermann I., Deeks M.J., Machesky L.M., Thomas P., Uhrig S., Rambke C., Hussey P.J., Huelskamp M.
    Development 134:967-977(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SPK1 AND SCAR3.
  12. Cited for: GENE FAMILY.
  13. "A pivotal role of the basic leucine zipper transcription factor bZIP53 in the regulation of Arabidopsis seed maturation gene expression based on heterodimerization and protein complex formation."
    Alonso R., Onate-Sanchez L., Weltmeier F., Ehlert A., Diaz I., Dietrich K., Vicente-Carbajosa J., Droege-Laser W.
    Plant Cell 21:1747-1761(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH BZIP10; BZIP25 AND BZIP53.
  14. "The conserved splicing factor SUA controls alternative splicing of the developmental regulator ABI3 in Arabidopsis."
    Sugliani M., Brambilla V., Clerkx E.J., Koornneef M., Soppe W.J.
    Plant Cell 22:1936-1946(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: ALTERNATIVE SPLICING, TISSUE SPECIFICITY.
  15. "Epigenetic regulation of gene programs by EMF1 and EMF2 in Arabidopsis."
    Kim S.Y., Zhu T., Sung Z.R.
    Plant Physiol. 152:516-528(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION BY EMF1 AND EMF2.
  16. Cited for: FUNCTION, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiABI3_ARATH
AccessioniPrimary (citable) accession number: Q01593
Secondary accession number(s): A6N2M3
, A6N2N0, A6N2P3, O23625, Q1EQV9, Q56ZT2, Q570G9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: October 1, 1994
Last modified: June 8, 2016
This is version 124 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

The truncated abi3-6 mutant lacking the DNA-binding domain is unable to localize to the nucleus and is an embryo stay-green mutant.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.